Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold475
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1773841
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 2 of 12
Found at i:266879 original size:33 final size:33
Alignment explanation
Indices: 266821--266887 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
266811 AAAATTTCCA
*** *
266821 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCCATAC
*
266854 AATGTATCGATACACAGAAAAATGTATCCATAC
1 AATGTATCGATACAAAGAAAAATGTATCCATAC
266887 A
1 A
266888 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCCATAC
Found at i:266931 original size:19 final size:19
Alignment explanation
Indices: 266907--266993 Score: 123
Period size: 19 Copynumber: 4.9 Consensus size: 19
266897 CAGCAGCTAA
*
266907 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
266926 TTATGTATCGATAC---A-
1 TTATGTATCGATACAAAAC
266941 -T-TGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
266958 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
266977 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
266994 TTGTTGAATT
Statistics
Matches: 62, Mismatches: 0, Indels: 12
0.84 0.00 0.16
Matches are distributed among these distances:
13 11 0.18
14 1 0.02
16 2 0.03
18 1 0.02
19 47 0.76
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.34
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:266947 original size:13 final size:13
Alignment explanation
Indices: 266929--266953 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
266919 ACAATACTTA
266929 TGTATCGATACAT
1 TGTATCGATACAT
266942 TGTATCGATACA
1 TGTATCGATACA
266954 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:266949 original size:32 final size:32
Alignment explanation
Indices: 266910--266972 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
266900 CAGCTAATTA
*
266910 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
266942 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
266973 AAACTTATGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:267073 original size:21 final size:21
Alignment explanation
Indices: 267049--267105 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
267039 CATTTGTAGG
267049 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
267070 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
267091 ATGTATCGATACATT
1 ATGTATCGATACATT
267106 TGGATAATTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:267136 original size:14 final size:15
Alignment explanation
Indices: 267113--267146 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
267103 ATTTGGATAA
267113 TTTTTAAATT-TTTT
1 TTTTTAAATTATTTT
*
267127 TTTTTTAATTATTTT
1 TTTTTAAATTATTTT
267142 TTTTT
1 TTTTT
267147 CAAACACTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTAAATTATTTT
Found at i:270110 original size:33 final size:33
Alignment explanation
Indices: 270068--270130 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
270058 ATTTAATTGC
270068 ATCGATACATGTTGCACAGTATCAATACAGTGT
1 ATCGATACATGTTGCACAGTATCAATACAGTGT
** *
270101 ATCGATACATGTTGCATTGTATCGATACAG
1 ATCGATACATGTTGCACAGTATCAATACAG
270131 CTTATTGGCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.32
Consensus pattern (33 bp):
ATCGATACATGTTGCACAGTATCAATACAGTGT
Found at i:270198 original size:13 final size:13
Alignment explanation
Indices: 270180--270205 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
270170 TACACAAAGT
270180 ATGTATCGATACA
1 ATGTATCGATACA
270193 ATGTATCGATACA
1 ATGTATCGATACA
270206 CCATAAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:270222 original size:33 final size:32
Alignment explanation
Indices: 270162--270225 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
270152 TAGCCAAACT
*
270162 TGTATCGATACACAAAGTATGTATCGATACAA
1 TGTATCGATACACAAAGAATGTATCGATACAA
270194 TGTATCGATACACCATAA-AATGTATCGATACA
1 TGTATCGATACA-CA-AAGAATGTATCGATACA
270226 TTGGATTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 15 0.52
34 2 0.07
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCGATACACAAAGAATGTATCGATACAA
Found at i:276557 original size:20 final size:20
Alignment explanation
Indices: 276522--276562 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
276512 CAAAATTCTT
276522 GTTTTTCACTTCAAAATACATC
1 GTTTTTCAC-TCAAAAT-CATC
276544 GTTTTTCA-TCAAAATCATC
1 GTTTTTCACTCAAAATCATC
276563 TTCAAAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
22 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.05, T:0.41
Consensus pattern (20 bp):
GTTTTTCACTCAAAATCATC
Found at i:278976 original size:10 final size:10
Alignment explanation
Indices: 278958--278992 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
278948 TCGATACATT
* *
278958 GGCTTGTAAT
1 GGCTAGTAAC
278968 GGCTAGTAAC
1 GGCTAGTAAC
278978 GGCTAGTAAC
1 GGCTAGTAAC
278988 GGCTA
1 GGCTA
278993 TATTTTCAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (10 bp):
GGCTAGTAAC
Found at i:280174 original size:19 final size:19
Alignment explanation
Indices: 280150--280189 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
280140 CTTTTCTTTC
280150 AAAAAAAACAAAAAAAAAG
1 AAAAAAAACAAAAAAAAAG
* * *
280169 AAAAAAGAGAAAAGAAAAG
1 AAAAAAAACAAAAAAAAAG
280188 AA
1 AA
280190 CTTGCTTAAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.85, C:0.03, G:0.12, T:0.00
Consensus pattern (19 bp):
AAAAAAAACAAAAAAAAAG
Found at i:281254 original size:61 final size:61
Alignment explanation
Indices: 281159--281642 Score: 658
Period size: 61 Copynumber: 8.0 Consensus size: 61
281149 CCTTTTATCT
* * * *
281159 TTTTAGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTTGTGGTACC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* *
281220 TTTTAGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
281281 TTTTAGTCCTCAAAGAGCATGA--CACTTTCCTTTCAAAGTCCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
281340 TTTTAGTCCTCAAAGAGCAAGACG-TCTTTCCCTTTTAAAGCCCACAGAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
281401 TTTTAGTCCTCAAA-AGGTAGGACGCCCTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGA-GCAGGACGCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * * * *
281462 TTTCAATCCTCAAAGACCATGA--CACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
281521 TTTTAGTCCTCAAAGAGCAGGATG-TCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCATC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACC
** *
281582 TTTTAGTCCTCAAAGAGCAGGATTCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
1 TTTTAGTCCTCAAAGAGCAGGACGCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
281643 CTTTCAAAGC
Statistics
Matches: 375, Mismatches: 38, Indels: 20
0.87 0.09 0.05
Matches are distributed among these distances:
59 107 0.29
60 9 0.02
61 251 0.67
62 8 0.02
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (61 bp):
TTTTAGTCCTCAAAGAGCAGGACGCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:281328 original size:120 final size:121
Alignment explanation
Indices: 281159--281642 Score: 663
Period size: 120 Copynumber: 4.0 Consensus size: 121
281149 CCTTTTATCT
* * * *
281159 TTTTAGTCCTCAAAGAGTAGGACGCATTTTCCTTTTAAAGCCCACACAAGTTTGTGGTACCTTTT
1 TTTTAGTCCTCAAAGAGCAGGAC-CACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
281224 AGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
65 AGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
281281 TTTTAGTCCTCAAAGAGCATGA-CACTTTCCTTTCAAAGTCCACACAAGTTGGTGGCACCTTTTA
1 TTTTAGTCCTCAAAGAGCAGGACCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
* * * *
281345 GTCCTCAAAGAGCAAGACG-TCTTTCCCTTTTAAAGCCCACAGAAGTTGGTGGCACC
66 GTCCTCAAAGAGCAGGATGCCCTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACC
* * *
281401 TTTTAGTCCTCAAA-AGGTAGGACGCCCTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
1 TTTTAGTCCTCAAAGA-GCAGGAC-CACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* * * * * *
281465 CAATCCTCAAAGACCATGA--CACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
64 TAGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
*** *
281521 TTTTAGTCCTCAAAGAGCAGGATGTCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTT
1 TTTTAGTCCTCAAAGAGCAGGACCACTTT-CCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
*
281586 AGTCCTCAAAGAGCAGGATTCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
65 AGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
281643 CTTTCAAAGC
Statistics
Matches: 317, Mismatches: 36, Indels: 18
0.85 0.10 0.05
Matches are distributed among these distances:
119 8 0.03
120 198 0.62
121 5 0.02
122 106 0.33
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (121 bp):
TTTTAGTCCTCAAAGAGCAGGACCACTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTA
GTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACC
Found at i:281463 original size:181 final size:181
Alignment explanation
Indices: 281159--281649 Score: 797
Period size: 181 Copynumber: 2.7 Consensus size: 181
281149 CCTTTTATCT
* * * *
281159 TTTTAGTCCTCAAAGAGTAGGACG-CATTTTCCTTTTAAAGCCCACACAAGTTTGTGGTACCTTT
1 TTTTAGTCCTCAAAGAGCAGGACGTC-TTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTT
* *
281223 TAGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTTAGT
65 TAGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAAT
* *
281288 CCTCAAAGAGCATGACACTTTCCTTTCAAAGTCCACACAAGTTGGTGGCACC
130 CCTCAAAGACCATGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
281340 TTTTAGTCCTCAAAGAGCAAGACGTCTTTCCCTTTTAAAGCCCACAGAAGTTGGTGGCACCTTTT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
* * *
281405 AGTCCTCAAA-AGGTAGGACGCCCTCTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAAT
66 AGTCCTCAAAGA-GCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAAT
281469 CCTCAAAGACCATGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
130 CCTCAAAGACCATGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
* *
281521 TTTTAGTCCTCAAAGAGCAGGATGTCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTT
1 TTTTAGTCCTCAAAGAGCAGGACGTCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
*
281586 AGTCCTCAAAGAGCAGGATTCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCCTTTCAA
66 AGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCA-CCTTTCAA
281650 AGCCCATACA
Statistics
Matches: 285, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
180 1 0.00
181 274 0.96
182 10 0.04
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (181 bp):
TTTTAGTCCTCAAAGAGCAGGACGTCTTTCCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTT
AGTCCTCAAAGAGCAGGATGCCCTTTCCTTTTAAAGCCCACACAAGTTGGTGGCACCTTTCAATC
CTCAAAGACCATGACACTTTCCTTTCAAAGCCCACACAAGTTGGTGGCACC
Found at i:281652 original size:30 final size:30
Alignment explanation
Indices: 281612--281672 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
281602 GATTCCCTTT
*
281612 CCTTTTAAAGCCCACACAAGTTGGTGGCAC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAC
*
281642 CCTTTCAAAGCCCATACAAGTTGGTGGCAC
1 CCTTTCAAAGCCCACACAAGTTGGTGGCAC
281672 C
1 C
281673 TTTTAGTCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.26, C:0.31, G:0.20, T:0.23
Consensus pattern (30 bp):
CCTTTCAAAGCCCACACAAGTTGGTGGCAC
Found at i:281661 original size:91 final size:91
Alignment explanation
Indices: 281550--281729 Score: 281
Period size: 91 Copynumber: 2.0 Consensus size: 91
281540 GGATGTCTTT
* * * *
281550 CCCTTTTAAAGCCCACACAAGTTGGTGGCATCTTTTAGTCCTCAAAGAGCAGGATTCCCTTTCCT
1 CCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGA-GCCCTTTCCT
281615 TTT-AAAGCCCACACAAGTTGGTGGCA
65 TTTCAAAGCCCACACAAGTTGGTGGCA
* *
281641 CCCTTTCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGAGGCCTTTCCTT
1 CCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGAGCCCTTTCCTT
*
281706 TTCAAAGCCCATACAAGTTGGTGG
66 TTCAAAGCCCACACAAGTTGGTGG
281730 TACCTTTTAG
Statistics
Matches: 81, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
90 11 0.14
91 70 0.86
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (91 bp):
CCCTTTCAAAGCCCACACAAGTTGGTGGCACCTTTTAGTCCTCAAAGAGCAAGAGCCCTTTCCTT
TTCAAAGCCCACACAAGTTGGTGGCA
Found at i:281711 original size:61 final size:61
Alignment explanation
Indices: 281644--281760 Score: 200
Period size: 61 Copynumber: 1.9 Consensus size: 61
281634 GGTGGCACCC
*
281644 TTTCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTC-AAAGAGCAAGAGGCCTTTCCT
1 TTTCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAAG-GCAAGACGCCTTTCCT
*
281705 TTTCAAAGCCCATACAAGTTGGTGGTACCTTTTAGTCCTCAAAAGGCAAGACGCCT
1 TTTCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGGCAAGACGCCT
281761 CTCTTTTTTT
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
61 49 0.92
62 4 0.08
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (61 bp):
TTTCAAAGCCCATACAAGTTGGTGGCACCTTTTAGTCCTCAAAAGGCAAGACGCCTTTCCT
Found at i:284794 original size:79 final size:78
Alignment explanation
Indices: 284679--285447 Score: 619
Period size: 79 Copynumber: 9.7 Consensus size: 78
284669 CTAAAATACT
* * *
284679 GATTTTCCACCAA-CGGGGATACTCCAACCCTGTTATTTTTGAAGGGATACTCAAACCCCGATTT
1 GATTTTTCA-CAATCGGGGATACTCCAACCC-GTTATTTTTGAAGGGATACTCCAACCTCGATTT
284743 TATTTCCAAAACATC
64 TATTTCCAAAACATC
* * ** *
284758 GATTTTTCACAATCGGGGATACTCCAACCTCATTATTTTTGAGGGGATACTTAAACC-CTATTAT
1 GATTTTTCACAATCGGGGATACTCCAACC-CGTTATTTTTGAAGGGATACTCCAACCTCGATT-T
* * *** **
284822 TCGAGGGGATACTTTAACCCC
64 T--A----TTTCCAAAACATC
* * * *
284843 GATTTTTCACAATCGAGGATACTCCAACCCTATTATTTTTGAAGGGATACTCTAACCCCGATTTT
1 GATTTTTCACAATCGGGGATACTCCAACCC-GTTATTTTTGAAGGGATACTCCAACCTCGATTTT
* *
284908 ATTTTCAAAACATA
65 ATTTCCAAAACATC
** * * *
284922 GATTTTTCACAATCATGGATACTCCAACCTTGTTATTTTCG-AGAGGATACTCCAACCTAG-TTT
1 GATTTTTCACAATCGGGGATACTCCAACC-CGTTATTTTTGAAG-GGATACTCCAACCTCGATTT
*
284985 TATTTCTAAAACATC
64 TATTTCCAAAACATC
* * * * *
285000 GA-TTTTCGACCATTGGGG-TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACTTTGATTT
1 GATTTTTC-ACAATCGGGGATACTCCAA-CCCGTTATTTTTGAAGGGATACTCCAACCTCGATTT
*
285063 TATTTCCAAAATA-C
64 TATTTCCAAAACATC
* * * * * *
285077 TGATTTTCCACAATCGAGGATACTCCAACCCTATTATTTTTGAGGGGATACTCTAACCCCGATTT
1 -GATTTTTCACAATCGGGGATACTCCAACCC-GTTATTTTTGAAGGGATACTCCAACCTCGATTT
*
285142 TATTTTCAAAACA-C
64 TATTTCCAAAACATC
** * * *
285156 AGATTTTTCACAATCATGGATACTCCAACCTTGTTATTTTCG-AGAGGATACTCCAACCTAG-TT
1 -GATTTTTCACAATCGGGGATACTCCAACC-CGTTATTTTTGAAG-GGATACTCCAACCTCGATT
*
285219 TTATTTCTAAAACATC
63 TTATTTCCAAAACATC
** * * * * *
285235 GATTTTAGACCATCGGGG-TACTCCAACCCCGTTATTTTTTAGGGGATACTCCAACTTTGATTTT
1 GATTTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTTGAAGGGATACTCCAACCTCGATTTT
285299 ATTTCCAAAACA-C
65 ATTTCCAAAACATC
* * * * ** **
285312 TGATTTTCCACAATCGAGGATACTCCAACCCTGTTATTTTTTAGGGGATACTCTTA-CTTTAGTT
1 -GATTTTTCACAATCGGGGATACTCCAACCC-GTTATTTTTGAAGGGATACTCCAACCTCGA-TT
* *
285376 TTATTTTCAAAACACC
63 TTATTTCCAAAACATC
* * * *
285392 GATTTTTCACAATCGGGAATACTCTAACCCCATTATTTCTGAAGGGATACTCCAAC
1 GATTTTTCACAATCGGGGATACTCCAA-CCCGTTATTTTTGAAGGGATACTCCAAC
285448 TTATCTCCAA
Statistics
Matches: 553, Mismatches: 103, Indels: 67
0.76 0.14 0.09
Matches are distributed among these distances:
77 68 0.12
78 127 0.23
79 287 0.52
80 5 0.01
81 1 0.00
83 1 0.00
84 1 0.00
85 59 0.11
86 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (78 bp):
GATTTTTCACAATCGGGGATACTCCAACCCGTTATTTTTGAAGGGATACTCCAACCTCGATTTTA
TTTCCAAAACATC
Found at i:284899 original size:28 final size:28
Alignment explanation
Indices: 284773--284900 Score: 77
Period size: 28 Copynumber: 4.5 Consensus size: 28
284763 TTCACAATCG
* *
284773 GGGATACTCCAA-CCTCATTATTTTTGAG
1 GGGATACTCTAACCCT-ATTATTTTTGAA
* *
284801 GGGATACT-TAAACCCTATTA--TTCGAG
1 GGGATACTCT-AACCCTATTATTTTTGAA
* * ***
284827 GGGATACTTTAACCCCGATT-TTTCACAA
1 GGGATACTCTAA-CCCTATTATTTTTGAA
*
284855 TCGAGGATACTCCAACCCTATTATTTTTGAA
1 --G-GGATACTCTAACCCTATTATTTTTGAA
284886 GGGATACTCTAACCC
1 GGGATACTCTAACCC
284901 CGATTTTATT
Statistics
Matches: 76, Mismatches: 14, Indels: 20
0.69 0.13 0.18
Matches are distributed among these distances:
26 15 0.20
27 7 0.09
28 29 0.38
29 4 0.05
30 7 0.09
31 14 0.18
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.32
Consensus pattern (28 bp):
GGGATACTCTAACCCTATTATTTTTGAA
Found at i:285082 original size:156 final size:155
Alignment explanation
Indices: 284661--285447 Score: 627
Period size: 156 Copynumber: 5.0 Consensus size: 155
284651 TCATTTATGT
* * * ** *
284661 TTTTACTTCTAAAATACTGATTTTCCACCAACGGGGATACTCCAACCCTGTTATTTTTGAAGGGA
1 TTTTATTTCTAAAACACAGATTTT-CA-CAATTGGGATACTCCAACCCTGTTATTTTTGAGGGGA
* ** * * *
284726 TACTCAAACCCCGATTTTATTTCCAAAACATCGATTTTTCACAATCGGGGATACTCCAA-CCTCA
64 TACTCCAACCTTGATTTTATTTCCAAAACATAGATTTTTCACAATC-AGGATACTCCAACCCT-G
** *
284790 TTATTTTTGAGGGGATACTTAAACCCTATTA
127 TTATTTTTGAGGGGATACTCCAA-CCTA-GA
** * * ** * * * * *
284821 TTCGAGGGGATACTTTAACCCCGATTTTTCACAATCGAGGATACTCCAACCCTATTATTTTTGAA
1 TTTTA----TTTCTAAAACACAGA-TTTTCACAATTG-GGATACTCCAACCCTGTTATTTTTGAG
* ** *
284886 GGGATACTCTAACCCCGATTTTATTTTCAAAACATAGATTTTTCACAATCATGGATACTCCAACC
60 GGGATACTCCAACCTTGATTTTATTTCCAAAACATAGATTTTTCACAATCA-GGATACTCCAACC
* * *
284951 TTGTTATTTTCGAGAGGATACTCCAACCTAG-
124 CTGTTATTTTTGAGGGGATACTCCAACCTAGA
* * *
284982 TTTTATTTCTAAAACATC-GATTTTCGACCATTGGGGTACTCCAACCCCGTTATTTTTGAGGGGA
1 TTTTATTTCTAAAACA-CAGATTTTC-ACAATTGGGATACTCCAACCCTGTTATTTTTGAGGGGA
* * * *
285046 TACTCCAACTTTGATTTTATTTCCAAAATACT-GATTTTCCACAATCGAGGATACTCCAACCCTA
64 TACTCCAACCTTGATTTTATTTCCAAAACA-TAGATTTTTCACAATC-AGGATACTCCAACCCTG
* **
285110 TTATTTTTGAGGGGATACTCTAACCCCGA
127 TTATTTTTGAGGGGATACTCCAACCTAGA
* * *
285139 TTTTATTT-TCAAAACACAGATTTTTCACAATCAT-GGATACTCCAACCTTGTTATTTTCGAGAG
1 TTTTATTTCT-AAAACACAGA-TTTTCACAAT--TGGGATACTCCAACCCTGTTATTTTTGAGGG
* * * ** * * * *
285202 GATACTCCAACCTAG-TTTTATTTCTAAAACATCGATTTTAGACCATCGGGGTACTCCAACCCCG
62 GATACTCCAACCTTGATTTTATTTCCAAAACATAGATTTTTCACAATCAGGATACTCCAACCCTG
* * *
285266 TTATTTTTTAGGGGATACTCCAACTTTGA
127 TTATTTTTGAGGGGATACTCCAACCTAGA
* * * *
285295 TTTTATTTCCAAAACACTGATTTTCCACAATCGAGGATACTCCAACCCTGTTATTTTTTAGGGGA
1 TTTTATTTCTAAAACACAGATTTT-CACAATTG-GGATACTCCAACCCTGTTATTTTTGAGGGGA
** * * ** * * **
285360 TACTCTTA-CTTTAGTTTTATTTTCAAAACACCGATTTTTCACAATCGGGAATACTCTAACCCCA
64 TACTCCAACCTTGA-TTTTATTTCCAAAACATAGATTTTTCACAATCAGG-ATACTCCAACCCTG
* *
285424 TTATTTCTGAAGGGATACTCCAAC
127 TTATTTTTGAGGGGATACTCCAAC
285448 TTATCTCCAA
Statistics
Matches: 506, Mismatches: 95, Indels: 54
0.77 0.15 0.08
Matches are distributed among these distances:
155 6 0.01
156 202 0.40
157 89 0.18
158 75 0.15
159 1 0.00
160 3 0.01
161 3 0.01
163 8 0.02
164 113 0.22
165 6 0.01
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (155 bp):
TTTTATTTCTAAAACACAGATTTTCACAATTGGGATACTCCAACCCTGTTATTTTTGAGGGGATA
CTCCAACCTTGATTTTATTTCCAAAACATAGATTTTTCACAATCAGGATACTCCAACCCTGTTAT
TTTTGAGGGGATACTCCAACCTAGA
Found at i:285447 original size:235 final size:235
Alignment explanation
Indices: 284843--285405 Score: 984
Period size: 235 Copynumber: 2.4 Consensus size: 235
284833 CTTTAACCCC
* *
284843 GATTTTTCACAATCGAGGATACTCCAACCCTATTATTTTTGAAGGGATACTCTAACCCCGATTTT
1 GATTTTCCACAATCGAGGATACTCCAACCCTATTATTTTTGAGGGGATACTCTAACCCCGATTTT
*
284908 ATTTTCAAAACATAGATTTTTCACAATCATGGATACTCCAACCTTGTTATTTTCGAGAGGATACT
66 ATTTTCAAAACACAGATTTTTCACAATCATGGATACTCCAACCTTGTTATTTTCGAGAGGATACT
* *
284973 CCAACCTAGTTTTATTTCTAAAACATCGATTTTCGACCATTGGGGTACTCCAACCCCGTTATTTT
131 CCAACCTAGTTTTATTTCTAAAACATCGATTTTAGACCATCGGGGTACTCCAACCCCGTTATTTT
*
285038 TGAGGGGATACTCCAACTTTGATTTTATTTCCAAAATACT
196 TGAGGGGATACTCCAACTTTGATTTTATTTCCAAAACACT
285078 GATTTTCCACAATCGAGGATACTCCAACCCTATTATTTTTGAGGGGATACTCTAACCCCGATTTT
1 GATTTTCCACAATCGAGGATACTCCAACCCTATTATTTTTGAGGGGATACTCTAACCCCGATTTT
285143 ATTTTCAAAACACAGATTTTTCACAATCATGGATACTCCAACCTTGTTATTTTCGAGAGGATACT
66 ATTTTCAAAACACAGATTTTTCACAATCATGGATACTCCAACCTTGTTATTTTCGAGAGGATACT
285208 CCAACCTAGTTTTATTTCTAAAACATCGATTTTAGACCATCGGGGTACTCCAACCCCGTTATTTT
131 CCAACCTAGTTTTATTTCTAAAACATCGATTTTAGACCATCGGGGTACTCCAACCCCGTTATTTT
*
285273 TTAGGGGATACTCCAACTTTGATTTTATTTCCAAAACACT
196 TGAGGGGATACTCCAACTTTGATTTTATTTCCAAAACACT
* * * ***
285313 GATTTTCCACAATCGAGGATACTCCAACCCTGTTATTTTTTAGGGGATACTCTTA-CTTTAGTTT
1 GATTTTCCACAATCGAGGATACTCCAACCCTATTATTTTTGAGGGGATACTCTAACCCCGA-TTT
*
285377 TATTTTCAAAACACCGATTTTTCACAATC
65 TATTTTCAAAACACAGATTTTTCACAATC
285406 GGGAATACTC
Statistics
Matches: 313, Mismatches: 14, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
234 2 0.01
235 311 0.99
ACGTcount: A:0.28, C:0.22, G:0.13, T:0.37
Consensus pattern (235 bp):
GATTTTCCACAATCGAGGATACTCCAACCCTATTATTTTTGAGGGGATACTCTAACCCCGATTTT
ATTTTCAAAACACAGATTTTTCACAATCATGGATACTCCAACCTTGTTATTTTCGAGAGGATACT
CCAACCTAGTTTTATTTCTAAAACATCGATTTTAGACCATCGGGGTACTCCAACCCCGTTATTTT
TGAGGGGATACTCCAACTTTGATTTTATTTCCAAAACACT
Found at i:296399 original size:79 final size:79
Alignment explanation
Indices: 296307--296478 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 79
296297 TAAAGACGGG
* * *
296307 GTTGCAGTATCCCCTCAGAAATAAC-GAGGCTAGAGTATCCCCAATTATGGAAAATCGATGTT-T
1 GTTGAAGTATCCCCTCAAAAATAACAG-GGCTAGAGTATCCCCAATTATGAAAAATCGATGTTCT
*
296370 TGAAAATAAAACCGGA
65 AG-AAATAAAACCGGA
* * * *
296386 GTTGAAGTTTCCCCTCAAAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTCTA
1 GTTGAAGTATCCCCTCAAAAATAACAGGGCTAGAGTATCCCCAATTATGAAAAATCGATGTTCTA
* *
296451 GAAATAAAATCGGG
66 GAAATAAAACCGGA
*
296465 GTTGGAGTATCCCC
1 GTTGAAGTATCCCC
296479 GTTGATGGAG
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
79 76 0.96
80 3 0.04
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (79 bp):
GTTGAAGTATCCCCTCAAAAATAACAGGGCTAGAGTATCCCCAATTATGAAAAATCGATGTTCTA
GAAATAAAACCGGA
Found at i:296477 original size:51 final size:51
Alignment explanation
Indices: 296410--296529 Score: 152
Period size: 51 Copynumber: 2.4 Consensus size: 51
296400 TCAAAAATAA
* *
296410 CAGGGTTAGAGTATCCCCGATT-ATGAAAAATTGATGTTCTAGAAATAAAAT
1 CAGGGTTGGAGTATCCCCG-TTGATGAAAAATTGATGTTCTAGAAATAAAAC
* * * * * *
296461 CGGGGTTGGAGTATCCCCGTTGATGGAGAATTGGTGTTTTGGAAATAAAAC
1 CAGGGTTGGAGTATCCCCGTTGATGAAAAATTGATGTTCTAGAAATAAAAC
296512 CAGGGTTGGAGTATCCCC
1 CAGGGTTGGAGTATCCCC
296530 TCGGCAATAA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 2 0.03
51 57 0.97
ACGTcount: A:0.30, C:0.14, G:0.28, T:0.28
Consensus pattern (51 bp):
CAGGGTTGGAGTATCCCCGTTGATGAAAAATTGATGTTCTAGAAATAAAAC
Found at i:296554 original size:79 final size:79
Alignment explanation
Indices: 296463--296610 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 79
296453 AATAAAATCG
* * * * *
296463 GGGTTGGAGTATCCCCG-TTGATGGAGAATTGGTGTTTTGGAAATAAAACCAG-GGTTGGAGTAT
1 GGGTTGGAGTATCCCCGATTG-TGGAAAATCGATATTTTAGAAATAAAA-CAGAGGTTGGAGTAT
296526 CCCCTCGGCAATAATA
64 CCCCTCGGCAATAATA
**
296542 GGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTAGAAATAAAATTGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTAGAAATAAAACAGAGGTTGGAGTATCC
296607 CCTC
66 CCTC
296611 AGAAATAGTG
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
78 1 0.02
79 56 0.93
80 3 0.05
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (79 bp):
GGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTAGAAATAAAACAGAGGTTGGAGTATCC
CCTCGGCAATAATA
Found at i:296583 original size:130 final size:130
Alignment explanation
Indices: 296339--296608 Score: 337
Period size: 130 Copynumber: 2.1 Consensus size: 130
296329 AACGAGGCTA
*
296339 GAGTATCCCCAATTATGGAAAATCGATGTTTTGAAAATAAAACCGGAGTTGAAGTTTCCCCTCAA
1 GAGTATCCCCAATTATGGAAAATCGATGTTTTGAAAATAAAACCGGAGTTGAAGTATCCCCTCAA
* * *
296404 AAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATTGATGTTCTAGAAATAAAATCGGGGTTG
66 AAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATCGATATTCTAGAAATAAAATCGAGGTTG
* * * * * *
296469 GAGTATCCCC-GTTGATGGAGAATTGGTGTTTTGGAAATAAAACCAGG-GTTGGAGTATCCCCTC
1 GAGTATCCCCAATT-ATGGAAAATCGATGTTTTGAAAATAAAACC-GGAGTTGAAGTATCCCCTC
*** * * * * * *
296532 GGCAATAATAGGGTTGGAGTATCCCCGATTGTGGAAAATCGATATTTTAGAAATAAAATTGAGGT
64 AAAAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATCGATATTCTAGAAATAAAATCGAGGT
296597 TG
129 TG
296599 GAGTATCCCC
1 GAGTATCCCC
296609 TCAGAAATAG
Statistics
Matches: 119, Mismatches: 19, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
129 2 0.02
130 115 0.97
131 2 0.02
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (130 bp):
GAGTATCCCCAATTATGGAAAATCGATGTTTTGAAAATAAAACCGGAGTTGAAGTATCCCCTCAA
AAATAACAGGGTTAGAGTATCCCCGATTATGAAAAATCGATATTCTAGAAATAAAATCGAGGTTG
Found at i:300732 original size:51 final size:51
Alignment explanation
Indices: 300652--300768 Score: 146
Period size: 51 Copynumber: 2.3 Consensus size: 51
300642 AAAATAACAT
* *
300652 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTCTAGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTCTAGAAATAAAACCAG
* * * * * *
300703 GGTTGGAGTATCCTCG-TTGATGGAGAATTGGTGTTTTGGAAATAAAACCAG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTGATGTTCTAGAAATAAAACCAG
300754 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
300769 TCGGCAATAA
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
50 2 0.04
51 54 0.96
ACGTcount: A:0.29, C:0.13, G:0.28, T:0.30
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGATGTTCTAGAAATAAAACCAG
Found at i:300746 original size:130 final size:130
Alignment explanation
Indices: 300604--300845 Score: 306
Period size: 130 Copynumber: 1.9 Consensus size: 130
300594 GGAAAATCGA
* * **
300604 TGTTTTGAAAATAAAACC-GGAGTTGAAGTTTCCCCTAAAAAATAACATGGTTGGAGTATCCCCG
1 TGTTTTGAAAATAAAACCAGG-GTTGAAGTATCCCCTAAAAAATAACAGGGTTAAAGTATCCCCG
* * *
300668 ATTATGAAAAATTGATGTTCTAGAAATAAAATCGGGGTTGGAGTATCCTCGTTGATGGAGAATTG
65 ATTATGAAAAATCGATATTCTAGAAATAAAATCGAGGTTGGAGTATCCTCGTTGATGGAGAATTG
300733 G
130 G
* * **** *
300734 TGTTTTGGAAATAAAACCAGGGTTGGAGTATCCCCTCGGCAATAATAGGGTTAAAGTATCCCCGA
1 TGTTTTGAAAATAAAACCAGGGTTGAAGTATCCCCTAAAAAATAACAGGGTTAAAGTATCCCCGA
* * * *
300799 TTGTGGAAAATCGATATTTTAGAAATAAAATTGAGGTTGGAGTATCC
66 TTATGAAAAATCGATATTCTAGAAATAAAATCGAGGTTGGAGTATCC
300846 CCTCAGAAAT
Statistics
Matches: 93, Mismatches: 18, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
130 91 0.98
131 2 0.02
ACGTcount: A:0.33, C:0.13, G:0.24, T:0.30
Consensus pattern (130 bp):
TGTTTTGAAAATAAAACCAGGGTTGAAGTATCCCCTAAAAAATAACAGGGTTAAAGTATCCCCGA
TTATGAAAAATCGATATTCTAGAAATAAAATCGAGGTTGGAGTATCCTCGTTGATGGAGAATTGG
Found at i:300837 original size:79 final size:79
Alignment explanation
Indices: 300736--301082 Score: 398
Period size: 79 Copynumber: 4.4 Consensus size: 79
300726 AGAATTGGTG
* * * * **
300736 TTTTGGAAATAAAACC-AGGGTTGGAGTATCCCCTCGGCAATAATAGGGTTAAAGTATCCCCGAT
1 TTTTAGAAATAAAACCGA-GGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGAT
*
300800 TGTGGAAAATCGATA
65 TGTGAAAAATCGATA
**
300815 TTTTAGAAATAAAATTGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATT
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATT
* * * *
300880 ATGGAAAATTGATG
66 GTGAAAAATCGATA
*
300894 TTTT-GAAAATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGAT
1 TTTTAG-AAATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGAT
*
300958 TGTGAAAAATCGGTA
65 TGTGAAAAATCGATA
** * ** *
300973 TTTTAGAAATAAAA-TTAGGGTT-GAGTATCCCCT-TGAAAATAATGGGGTTGGAGTATCCCCAA
1 TTTTAGAAATAAAACCGA-GGTTGGAGTATCCCCTCAG-AAATAACAGGGTTGGAGTATCCCCGA
* *
301035 TTGTGAAAAATTGATG
64 TTGTGAAAAATCGATA
* *
301051 TTTTGGAAACAAAACCGAGGTTGGAGTATCCC
1 TTTTAGAAATAAAACCGAGGTTGGAGTATCCC
301083 TGATTATGGA
Statistics
Matches: 230, Mismatches: 31, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
77 1 0.00
78 66 0.29
79 161 0.70
80 2 0.01
ACGTcount: A:0.33, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TTTTAGAAATAAAACCGAGGTTGGAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCCCGATT
GTGAAAAATCGATA
Found at i:300857 original size:31 final size:28
Alignment explanation
Indices: 300819--300875 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 28
300809 TCGATATTTT
300819 AGAAATAAAATTGAGGTTGGAGTATCCCCTC
1 AGAAATAAAA--G-GGTTGGAGTATCCCCTC
*
300850 AGAAATAACAGGGTTGGAGTATCCCC
1 AGAAATAAAAGGGTTGGAGTATCCCC
300876 GATTATGGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 15 0.60
29 1 0.04
31 9 0.36
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (28 bp):
AGAAATAAAAGGGTTGGAGTATCCCCTC
Found at i:300890 original size:209 final size:209
Alignment explanation
Indices: 300527--300924 Score: 534
Period size: 209 Copynumber: 1.9 Consensus size: 209
300517 AAATTTAATA
* * * *
300527 TTTTGGAGATAAAGACGGGGTTGCAGTATCCCCTCAGAAATAACGGGGCTAGAGTATCCCCAATT
1 TTTTGGAAATAAAGACAGGGTTGCAGTATCCCCTCAGAAATAACAGGGCTAAAGTATCCCCAATT
* * *
300592 GTGGAAAATCGATGTTTTGAAAATAAAACCGGAGTTGAAGTTTCCCCTAAAAAATAACATGGTTG
66 GTGGAAAATCGATATTTTGAAAATAAAACCGGAGTTGAAGTATCCCCTAAAAAATAACAGGGTTG
* *
300657 GAGTATCCCCGATTATGAAAAATTGATGTTCTAG-AAATAAAATCGGGGTTGGAGTATCCTCGTT
131 GAGTATCCCCGATTATGAAAAATTGATGTT-TAGAAAATAAAACCGAGGTTGGAGTATCCTCGTT
300721 GATGGAGAATTGGTG
195 GATGGAGAATTGGTG
* * * * * *
300736 TTTTGGAAATAAA-ACCAGGGTTGGAGTATCCCCTCGGCAATAATAGGGTTAAAGTATCCCCGAT
1 TTTTGGAAATAAAGA-CAGGGTTGCAGTATCCCCTCAGAAATAACAGGGCTAAAGTATCCCCAAT
** * * *
300800 TGTGGAAAATCGATATTTT-AGAAATAAAA-TTGAGGTTGGAGTATCCCCTCAGAAATAACAGGG
65 TGTGGAAAATCGATATTTTGA-AAATAAAACCGGA-GTTGAAGTATCCCCTAAAAAATAACAGGG
* *
300863 TTGGAGTATCCCCGATTATGGAAAATTGATGTTTTGAAAATAAAACCGAGGTTGGAGTATCC
128 TTGGAGTATCCCCGATTATGAAAAATTGATGTTTAGAAAATAAAACCGAGGTTGGAGTATCC
300925 CCTCAGAAAT
Statistics
Matches: 163, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
208 6 0.04
209 157 0.96
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (209 bp):
TTTTGGAAATAAAGACAGGGTTGCAGTATCCCCTCAGAAATAACAGGGCTAAAGTATCCCCAATT
GTGGAAAATCGATATTTTGAAAATAAAACCGGAGTTGAAGTATCCCCTAAAAAATAACAGGGTTG
GAGTATCCCCGATTATGAAAAATTGATGTTTAGAAAATAAAACCGAGGTTGGAGTATCCTCGTTG
ATGGAGAATTGGTG
Found at i:300925 original size:158 final size:157
Alignment explanation
Indices: 300702--301082 Score: 518
Period size: 158 Copynumber: 2.4 Consensus size: 157
300692 AATAAAATCG
* * *
300702 GGGTTGGAGTATCCTCG-TTGATGGAGAATTGGTGTTTTGGAAATAAAACC-AGGGTTGGAGTAT
1 GGGTTGGAGTATCCCCGATT-ATGGAAAATTGATGTTTTGGAAATAAAACCGA-GGTTGGAGTAT
* * * *
300765 CCCCTCGGCAATAATAGGGTTAAAGTATCCCCGATTGTGGAAAATCGATATTTTAGAAATAAAAT
64 CCCCTCAGAAATAACAGGGTTAAAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAAT
300830 T-GAGGTTGGAGTATCCCCTCAG-AAATAACA
129 TAG-GGTT-GAGTATCCCCT-AGAAAATAACA
*
300860 GGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTGAAAATAAAACCGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
* ** *
300925 CCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATCGGTATTTTAGAAATAAAATTA
66 CCTCAGAAATAACAGGGTTAAAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATTA
* **
300990 GGGTTGAGTATCCCCTTGAAAATAATG
131 GGGTTGAGTATCCCCTAGAAAATAACA
* * * *
301017 GGGTTGGAGTATCCCCAATTGTGAAAAATTGATGTTTTGGAAACAAAACCGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
301082 C
66 C
301083 TGATTATGGA
Statistics
Matches: 199, Mismatches: 20, Indels: 9
0.87 0.09 0.04
Matches are distributed among these distances:
156 1 0.01
157 78 0.39
158 116 0.58
159 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (157 bp):
GGGTTGGAGTATCCCCGATTATGGAAAATTGATGTTTTGGAAATAAAACCGAGGTTGGAGTATCC
CCTCAGAAATAACAGGGTTAAAGTATCCCCGATTGTGAAAAATCGATATTTTAGAAATAAAATTA
GGGTTGAGTATCCCCTAGAAAATAACA
Found at i:303581 original size:50 final size:51
Alignment explanation
Indices: 303469--303604 Score: 195
Period size: 50 Copynumber: 2.7 Consensus size: 51
303459 AAAAATGCCT
* *
303469 GAATGTATCGATACATTGAGAA-ATGTATCGATACATCTAGGTTAAAACCCA
1 GAATGTATCGATACAATGA-AAGATGTATCGATACATCTAGGGTAAAACCCA
* * *
303520 GAATGTATCGATAAAATGAAAGATTTATCAATACATCT-GGGTAAAACCCA
1 GAATGTATCGATACAATGAAAGATGTATCGATACATCTAGGGTAAAACCCA
*
303570 GAATGTATCGATACAATGAAGGATGTATCGATACA
1 GAATGTATCGATACAATGAAAGATGTATCGATACA
303605 AATTGTAAAA
Statistics
Matches: 75, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
50 44 0.59
51 31 0.41
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.26
Consensus pattern (51 bp):
GAATGTATCGATACAATGAAAGATGTATCGATACATCTAGGGTAAAACCCA
Found at i:311016 original size:20 final size:19
Alignment explanation
Indices: 310991--311065 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
310981 AAAAACCCAG
310991 AATGTATCGATACAATGAAT
1 AATGTATCGATACAAT-AAT
*
311011 AATGTATCGATACAAATAGT
1 AATGTATCGATAC-AATAAT
* * *
311031 AAATATATCGATACATTTATT
1 -AATGTATCGATACA-ATAAT
*
311052 TATGTATCGATACA
1 AATGTATCGATACA
311066 TTTCTTTTCC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
20 28 0.61
21 18 0.39
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACAATAAT
Found at i:313983 original size:6 final size:7
Alignment explanation
Indices: 313953--313987 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
313943 TTACCTATAA
313953 TTGACTT
1 TTGACTT
313960 TTGACTT
1 TTGACTT
313967 TTGACTT
1 TTGACTT
313974 TTGA-TT
1 TTGACTT
313980 TTGACTT
1 TTGACTT
313987 T
1 T
313988 CAAAACAAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.14, C:0.11, G:0.14, T:0.60
Consensus pattern (7 bp):
TTGACTT
Found at i:315278 original size:21 final size:23
Alignment explanation
Indices: 315253--315300 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
315243 GATACTGTGG
*
315253 ATTATTTTTA-CTTG-AAAACAT
1 ATTATTTATAGCTTGAAAAACAT
315274 ATTATTTATAGCTTGAAAAACAT
1 ATTATTTATAGCTTGAAAAACAT
315297 -TTAT
1 ATTAT
315301 ACTTAACTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 9 0.38
22 8 0.33
23 7 0.29
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (23 bp):
ATTATTTATAGCTTGAAAAACAT
Found at i:316001 original size:26 final size:26
Alignment explanation
Indices: 315967--316024 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
315957 AAGATCAAGG
315967 GAAATATGAAATAATGCCATTCA-ATAA
1 GAAA-ATGAAATAATG-CATTCATATAA
* * *
315994 GAAAATGATATATTGCATTCATGTAA
1 GAAAATGAAATAATGCATTCATATAA
316020 GAAAA
1 GAAAA
316025 ATAGCACGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 6 0.22
26 17 0.63
27 4 0.15
ACGTcount: A:0.50, C:0.09, G:0.14, T:0.28
Consensus pattern (26 bp):
GAAAATGAAATAATGCATTCATATAA
Found at i:321933 original size:13 final size:13
Alignment explanation
Indices: 321915--321971 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
321905 TTCAACAATT
321915 TGTATCGATACAA
1 TGTATCGATACAA
321928 TGTATCGATACATAA
1 TGTATCGATAC--AA
321943 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
321960 TGTATCGATACA
1 TGTATCGATACA
321972 TAAGTTTTGT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 23 0.61
15 2 0.05
17 2 0.05
19 11 0.29
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:321952 original size:19 final size:18
Alignment explanation
Indices: 321928--321990 Score: 73
Period size: 19 Copynumber: 3.7 Consensus size: 18
321918 ATCGATACAA
321928 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
321947 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
321960 TGTATCGATACATAAGTTT
1 TGTATCGATACATAAG-TT
321979 TGTATCGATACA
1 TGTATCGATACA
321991 ATGTATCACT
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 11 0.29
15 2 0.05
17 2 0.05
19 23 0.61
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:321955 original size:32 final size:32
Alignment explanation
Indices: 321914--321997 Score: 159
Period size: 32 Copynumber: 2.6 Consensus size: 32
321904 TTTCAACAAT
321914 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
*
321946 TTGTATCGATACAATGTATCGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
321978 TTGTATCGATACAATGTATC
1 TTGTATCGATACAATGTATC
321998 ACTACGAAGC
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 51 1.00
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:322040 original size:13 final size:13
Alignment explanation
Indices: 322022--322048 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
322012 GCCAAAGAAA
322022 TGTATCGATACAT
1 TGTATCGATACAT
322035 TGTATCGATACAT
1 TGTATCGATACAT
322048 T
1 T
322049 TGAACTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:329023 original size:16 final size:16
Alignment explanation
Indices: 329002--329039 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
328992 AAAAATGATG
*
329002 AAAAAAAAAC-AACAC
1 AAAAAAAAACAAAAAC
329017 AAAAAAAAACAAAAAC
1 AAAAAAAAACAAAAAC
329033 AAAAAAA
1 AAAAAAA
329040 TGATGAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAACAAAAAC
Found at i:330567 original size:35 final size:35
Alignment explanation
Indices: 330389--331007 Score: 313
Period size: 35 Copynumber: 18.4 Consensus size: 35
330379 ATCTCTTTTC
*
330389 TTCAAAGTCCATAAC-TCAGTGGCA-TCTTTTTC--
1 TTCAAAGTCCACAACTTC-GTGGCACTCTTTTTCTT
* *
330421 TTCAAAGTCCACGAC-TCAGTGGC-GTC-TTTTC--
1 TTCAAAGTCCACAACTTC-GTGGCACTCTTTTTCTT
* *
330452 TCCAAAGTCCACAAC-TCAGTGGCAATC----TCTT
1 TTCAAAGTCCACAACTTC-GTGGCACTCTTTTTCTT
*
330483 TTCAAAGCCCACAAC-TCTGTGGCACTCTTTTTCTT
1 TTCAAAGTCCACAACTTC-GTGGCACTCTTTTTCTT
* *
330518 CTC-AAGTCCACAACTTCATGGCACTCTTTTTCTT
1 TTCAAAGTCCACAACTTCGTGGCACTCTTTTTCTT
* * * *
330552 TTCAAAGTCCACAAC-TCTATGGC-GTCTCTTTC-C
1 TTCAAAGTCCACAACTTC-GTGGCACTCTTTTTCTT
* *
330585 TTCAAAGTCCACAAC-TCAGTGGCATCCCTTTTTCCT
1 TTCAAAGTCCACAACTTC-GTGGCA-CTCTTTTTCTT
* * *
330621 GT--AAGTCCACAACTTAGTGGCA-TC----TCCT
1 TTCAAAGTCCACAACTTCGTGGCACTCTTTTTCTT
* * * *
330649 TTCTAAGTCCACGACTCCGTGGCACTTTTTTTCTT
1 TTCAAAGTCCACAACTTCGTGGCACTCTTTTTCTT
* * *
330684 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
1 TTCAAAGTCCACAACTTCGTGGCACTCTTTTTCT-T
*
330720 TT-TAAGTCCACAAC-TCTGTGGCAC-C-----CTT
1 TTCAAAGTCCACAACTTC-GTGGCACTCTTTTTCTT
* *
330748 TT--AAGCCCATAAC-TCTGTGGCACTCTTTTTCTT
1 TTCAAAGTCCACAACTTC-GTGGCACTCTTTTTCTT
* * *
330781 TTCAAAGCCCACCACTCCGTGGCAC-CTTTTTCTTT
1 TTCAAAGTCCACAACTTCGTGGCACTCTTTTTC-TT
* * * *
330816 TCTCCAAAGCCCATAAATCCGTGGCAC-CTTTTTCTT
1 T-T-CAAAGTCCACAACTTCGTGGCACTCTTTTTCTT
* * *
330852 TTCAAA-TCCCACCACTCCGTGGCA-GCTTTTTCTTT
1 TTCAAAGT-CCACAACTTCGTGGCACTCTTTTTC-TT
* * * *
330887 TCTCCAAAGCCCATAAATCCGTGGCAC-CTTTTTCTT
1 T-T-CAAAGTCCACAACTTCGTGGCACTCTTTTTCTT
* * *
330923 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTCAAAGTCCACAACTTCGTGGCACTCTTTTT--CTT
*
330960 TT--AAGTCCACAACTCCGTGGCA-TCTTTCTTCTT
1 TTCAAAGTCCACAACTTCGTGGCACTCTTT-TTCTT
*
330993 TTCAAAAGCCCACAA
1 TTC-AAAGTCCACAA
331008 GTCAGTGGCA
Statistics
Matches: 477, Mismatches: 60, Indels: 96
0.75 0.09 0.15
Matches are distributed among these distances:
27 19 0.04
28 9 0.02
29 4 0.01
30 17 0.04
31 50 0.10
32 26 0.05
33 31 0.06
34 112 0.23
35 131 0.27
36 22 0.05
37 56 0.12
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (35 bp):
TTCAAAGTCCACAACTTCGTGGCACTCTTTTTCTT
Found at i:330600 original size:102 final size:98
Alignment explanation
Indices: 330378--330734 Score: 313
Period size: 102 Copynumber: 3.6 Consensus size: 98
330368 CAATTCTTCA
* * *
330378 AATCTCTTTTCTTCAAAGTCCATAACTCAGTGGCA-TCTTTTTCTTCAAAGTCCACGAC-TCAGT
1 AATCTC-TTTCTTCAAAGTCCACAACTCAGTGGCACTCTTTTTCTTCTAAGTCCACAACTTCAGT
*
330441 GGCGTCTTTTCTCCAAAGTCCACAACTCAGTGGC
65 GGCCTCTTTTCTCCAAAGTCCACAACTCAGTGGC
* *
330475 AATCTC-TT-TTCAAAGCCCACAACTCTGTGGCACTCTTTTTCTTCTCAAGTCCACAACTTCA-T
1 AATCTCTTTCTTCAAAGTCCACAACTCAGTGGCACTCTTTTTCTTCT-AAGTCCACAACTTCAGT
*
330537 GGCACTCTTTTTCTTTTCAAAGTCCACAACTCTA-TGGC
65 GGC-CTC-TTTTC--TCCAAAGTCCACAACTC-AGTGGC
* * * *
330575 -GTCTCTTTCCTTCAAAGTCCACAACTCAGTGGCATCCCTTTTTCCTGTAAGTCCACAACTT-AG
1 AATCTCTTT-CTTCAAAGTCCACAACTCAGTGGCA-CTCTTTTTCTTCTAAGTCCACAACTTCAG
* * *
330638 TGGCATCTCCTTTCT---AAGTCCACGACTCCGTGGC
64 TGGC--CTCTTTTCTCCAAAGTCCACAACTCAGTGGC
* * * * * * *
330672 ACTTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCTTTTAAGTCCACAACT
1 AATCTCTTTC--TTCAAAGTCCACAACTCAGTGGCACTC-TTTT-TCTTCTAAGTCCACAACT
330735 CTGTGGCACC
Statistics
Matches: 214, Mismatches: 26, Indels: 37
0.77 0.09 0.13
Matches are distributed among these distances:
94 21 0.10
95 13 0.06
96 14 0.07
97 28 0.13
98 12 0.06
99 29 0.14
100 39 0.18
101 2 0.01
102 43 0.20
103 13 0.06
ACGTcount: A:0.22, C:0.31, G:0.12, T:0.35
Consensus pattern (98 bp):
AATCTCTTTCTTCAAAGTCCACAACTCAGTGGCACTCTTTTTCTTCTAAGTCCACAACTTCAGTG
GCCTCTTTTCTCCAAAGTCCACAACTCAGTGGC
Found at i:330698 original size:167 final size:164
Alignment explanation
Indices: 330389--330742 Score: 430
Period size: 167 Copynumber: 2.1 Consensus size: 164
330379 ATCTCTTTTC
* * * *
330389 TTCAAAGTCCATAACTC-AGTGGCATCTTTTTCTTCAAAGTCCACGACTCAGTGGCGTCTTTTCT
1 TTCAAAGTCCACAACTCTA-TGGCATCTTTTCCTTCAAAGTCCACAACTCAGTGGCATCTTTTCT
* *
330453 CCAAAGTCCACAACTCAGTGGCAATCTCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCTT
65 CCAAAGTCCACAACTCAGTGGCAATCTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTT
* * *
330518 CTCAAGTCCACAACTTCATGGCACTCTTTTTCT-T
130 CTAAAGCCCACAACTCCATGGCACTCTTTTTCTCT
*
330552 TTCAAAGTCCACAACTCTATGGCGTCTCTTTCCTTCAAAGTCCACAACTCAGTGGCATCCCTTTT
1 TTCAAAGTCCACAACTCTATGGCATCT-TTTCCTTCAAAGTCCACAACTCAGTGGCAT--CTTTT
* * * * * *
330617 -TCCTGTAAGTCCACAACTTAGTGGC-ATCTCCTTTCTAAGTCCACGACTCCGTGGCACTTTTTT
63 CTCC--AAAGTCCACAACTCAGTGGCAATCTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTT
* *
330680 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCTCT
126 TC-TTCTAAAGCCCACAACTCCATGGCACTCTTTTTCTCT
* *
330720 TT-TAAGTCCACAACTCTGTGGCA
1 TTCAAAGTCCACAACTCTATGGCA
330743 CCCTTTTAAG
Statistics
Matches: 162, Mismatches: 21, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
163 23 0.14
164 28 0.17
165 3 0.02
166 39 0.24
167 66 0.41
168 3 0.02
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (164 bp):
TTCAAAGTCCACAACTCTATGGCATCTTTTCCTTCAAAGTCCACAACTCAGTGGCATCTTTTCTC
CAAAGTCCACAACTCAGTGGCAATCTCCTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCTTC
TAAAGCCCACAACTCCATGGCACTCTTTTTCTCT
Found at i:330749 original size:27 final size:27
Alignment explanation
Indices: 330718--330776 Score: 91
Period size: 27 Copynumber: 2.2 Consensus size: 27
330708 CTCTTTTTCT
*
330718 CTTTTAAGTCCACAACTCTGTGGCACC
1 CTTTTAAGCCCACAACTCTGTGGCACC
* *
330745 CTTTTAAGCCCATAACTCTGTGGCACT
1 CTTTTAAGCCCACAACTCTGTGGCACC
330772 CTTTT
1 CTTTT
330777 TCTTTTCAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.36
Consensus pattern (27 bp):
CTTTTAAGCCCACAACTCTGTGGCACC
Found at i:330788 original size:97 final size:98
Alignment explanation
Indices: 330456--331017 Score: 341
Period size: 97 Copynumber: 5.6 Consensus size: 98
330446 CTTTTCTCCA
* * *
330456 AAGTCCACAACTCAGTGGCAATC----TCTTTTCAAAGCCCACAACTCTGTGGCACTCTTTTTCT
1 AAGTCCACAACTCTGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* *
330517 -TCTCAAGTCCACAACTTCA-TGGCACTCTTTTTCTTTT
66 CTTTTAAGTCCACAACTT-AGTGGCACTC-----CTTTT
* * * * * * *
330554 CAAAGTCCACAACTCTATGGC-GTCTCTTTC-CTTCAAAGTCCACAACTCAGTGGCATCCCTTTT
1 --AAGTCCACAACTCTGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCA-CTCTTTT
*
330617 TC-C-TGTAAGTCCACAACTTAGTGGCATCTCCTTTCT
63 TCTCTTTTAAGTCCACAACTTAGTGGCA-CTCCTTT-T
* * * *
330653 AAGTCCACGACTCCGTGGCACTTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCT
1 AAGTCCACAACTCTGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
330718 CTTTTAAGTCCACAACTCT-GTGGCAC-CCTTTT
66 CTTTTAAGTCCACAACT-TAGTGGCACTCCTTTT
* * *
330750 AAGCCCATAACTCTGTGGCACTCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCAC-CTTTTTCT
1 AAGTCCACAACTCTGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
* * * ** *
330814 -TTTCTCCAAAGCCCATAAATCCGTGGCACCTTTTTCTTTT
66 CTTT-T---AAGTCCACAACTTAGTGGCA-C---TCCTTTT
* * * * * *
330854 CAAATCCCACCACTCCGTGGCA-GCTTTTTCTTTTCTCCAAAGCCCATAAATCCGTGGCAC-CTT
1 -AAGT-CCACAACTCTGTGGCACTCTTTTTC-TTT-T-CAAAGCCCACAACTCCGTGGCACTCTT
* **
330917 TTTCT-TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
61 TTTCTCTTTT-AAGTCCACAACTTAGTGGCA--C----T-CCTTTT
* * *
330962 AAGTCCACAACTCCGTGGCA-TCTTTCTTCTTTTCAAAAGCCCACAAGTCAGTGGCA
1 AAGTCCACAACTCTGTGGCACTCTTT-TTCTTTTC-AAAGCCCACAACTCCGTGGCA
331018 ACCTTGAAAA
Statistics
Matches: 375, Mismatches: 53, Indels: 63
0.76 0.11 0.13
Matches are distributed among these distances:
95 3 0.01
96 9 0.02
97 66 0.18
98 23 0.06
99 41 0.11
100 38 0.10
101 2 0.01
102 40 0.11
103 13 0.03
104 6 0.02
105 47 0.13
106 39 0.10
107 12 0.03
108 36 0.10
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (98 bp):
AAGTCCACAACTCTGTGGCACTCTTTTTCTTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCT
CTTTTAAGTCCACAACTTAGTGGCACTCCTTTT
Found at i:330826 original size:37 final size:35
Alignment explanation
Indices: 330750--331022 Score: 279
Period size: 37 Copynumber: 7.7 Consensus size: 35
330740 GCACCCTTTT
* *
330750 AAGCCCATAACTCTGTGGCACTCTTTTTC-TTTTCA
1 AAGCCCACAACTCCGTGGCAC-CTTTTTCTTTTTCA
*
330785 AAGCCCACCACTCCGTGGCACCTTTTTCTTTTCTCCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-T-CA
* *
330822 AAGCCCATAAATCCGTGGCACCTTTTTC-TTTTCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTCA
* * *
330856 AATCCCACCACTCCGTGGCAGCTTTTTCTTTTCTCCA
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTT-T-CA
* *
330893 AAGCCCATAAATCCGTGGCACCTTTTTCTTTTT-A
1 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTCA
*
330927 AAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT--
1 AAGCCCACAACTCCGTGGCAC-CTTTTT-CTTTTTCA
* *
330962 AAGTCCACAACTCCGTGGCATCTTTCTTC-TTTTCAA
1 AAGCCCACAACTCCGTGGCACCTTT-TTCTTTTTC-A
* *
330998 AAGCCCACAAGTCAGTGGCAACCTT
1 AAGCCCACAACTCCGTGGC-ACCTT
331023 GAAAAGCCCA
Statistics
Matches: 200, Mismatches: 25, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
33 4 0.02
34 57 0.28
35 52 0.26
36 27 0.14
37 60 0.30
ACGTcount: A:0.21, C:0.33, G:0.12, T:0.34
Consensus pattern (35 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCTTTTTCA
Found at i:330867 original size:71 final size:71
Alignment explanation
Indices: 330750--331005 Score: 340
Period size: 71 Copynumber: 3.6 Consensus size: 71
330740 GCACCCTTTT
* *
330750 AAGCCCATAACTCTGTGGCACTCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTT
1 AAGCCCATAAATCCGTGGCAC-CTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTT
330815 TTCTCCA
65 TTCTCCA
* *
330822 AAGCCCATAAATCCGTGGCACCTTTTTCTTTTCAAATCCCACCACTCCGTGGCAGCTTTTTCTTT
1 AAGCCCATAAATCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
330887 TCTCCA
66 TCTCCA
* * *
330893 AAGCCCATAAATCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 AAGCCCATAAATCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCAC-CTTTTT-CT
330958 TTT-T---
64 TTTCTCCA
* * * *
330962 AAGTCCACAACTCCGTGGCATCTTTCTTCTTTTCAAAAGCCCAC
1 AAGCCCATAAATCCGTGGCACCTTT-TTCTTTTC-AAAGCCCAC
331006 AAGTCAGTGG
Statistics
Matches: 166, Mismatches: 14, Indels: 9
0.88 0.07 0.05
Matches are distributed among these distances:
69 21 0.13
70 7 0.04
71 108 0.65
72 26 0.16
73 4 0.02
ACGTcount: A:0.20, C:0.34, G:0.11, T:0.35
Consensus pattern (71 bp):
AAGCCCATAAATCCGTGGCACCTTTTTCTTTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTT
TCTCCA
Found at i:331006 original size:71 final size:69
Alignment explanation
Indices: 330648--331022 Score: 322
Period size: 71 Copynumber: 5.4 Consensus size: 69
330638 TGGCATCTCC
* * * * * * * * *
330648 TTTCTAAGTCCACGACTCCGTGGCACTTTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTT
1 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTCTCAAGCCCATAAATCCGTGGCAC-CTT
330713 TTTCT
65 TTTCT
* * * * *
330718 CTTT-TAAGTCCACAACTCTGTGGCA-C-----CCTTT-T-AAGCCCATAACTCTGTGGCACTCT
1 -TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTCTCAAGCCCATAAATCCGTGGCAC-CT
330774 TTTTCT
64 TTTTCT
* *
330780 TTTCAAAGCCCACCACTCCGTGGCACCTTTTTCTTTTCTCCAAAGCCCATAAATCCGTGGCACCT
1 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTCT-C-AAGCCCATAAATCCGTGGCACCT
330845 TTTTCT
64 TTTTCT
* * * *
330851 TTTCAAATCCCACCACTCCGTGGCAGCTTTTTCTTTTCTCCAAAGCCCATAAATCCGTGGCACCT
1 TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTCT-C-AAGCCCATAAATCCGTGGCACCT
330916 TTTTCT
64 TTTTCT
* * * * *
330922 TTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT-T-AAGTCCACAACTCCGTGGCATCT
1 TTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCTTTCTCAAGCCCATAAATCCGTGGCACCT
330985 TTCTTCT
64 TT-TTCT
* *
330992 TTTCAAAAGCCCACAAGTCAGTGGCAACCTT
1 TTTC-AAAGCCCACAACTCCGTGGC-ACCTT
331023 GAAAAGCCCA
Statistics
Matches: 261, Mismatches: 27, Indels: 32
0.82 0.08 0.10
Matches are distributed among these distances:
61 3 0.01
62 45 0.17
63 2 0.01
64 4 0.02
68 4 0.02
69 22 0.08
70 26 0.10
71 123 0.47
72 28 0.11
73 4 0.02
ACGTcount: A:0.20, C:0.32, G:0.12, T:0.35
Consensus pattern (69 bp):
TTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTCTCAAGCCCATAAATCCGTGGCACCTTT
TTCT
Found at i:331107 original size:49 final size:49
Alignment explanation
Indices: 331054--331727 Score: 841
Period size: 49 Copynumber: 13.9 Consensus size: 49
331044 GGCATCTTCT
* *
331054 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * *
331103 TTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCA-C-----C
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
331146 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * * **
331195 TTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* *
331244 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * * * *
331293 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGTACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
** * * *
331342 TTTAAAACCAATGTCACTAGCCTTGAATCAGCACATTGGCACC---G--
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
*
331386 -TTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * * **
331434 TTTATGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
*
331483 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * * **
331532 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * *
331581 TTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTG---TC
* **
331633 TTTTAAGTCCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATC
1 -TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
* * *
331683 TTTAAGTCCAATATCGTTGGCCTTGAATCAGTATATTGGCACCTT
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTT
331728 CGTCATCTTT
Statistics
Matches: 538, Mismatches: 71, Indels: 32
0.84 0.11 0.05
Matches are distributed among these distances:
43 75 0.14
44 1 0.00
46 2 0.00
48 1 0.00
49 414 0.77
50 2 0.00
52 2 0.00
53 41 0.08
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (49 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCACCTTTGTC
Found at i:331490 original size:239 final size:239
Alignment explanation
Indices: 331054--331728 Score: 999
Period size: 239 Copynumber: 2.8 Consensus size: 239
331044 GGCATCTTCT
* * * *
331054 TTTAAGTCCAATATCGCTGGCCTTGAATCAACATATTGGCACCTTTGTCTTTAAGACCAATGTCG
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTGTCTTTAAGACCAATGTCG
*
331119 CTGGCCTTGAATTAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
66 CTGGCCTTGAATTAGCACATTGGCACCGTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
*
331184 GCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATTAGCACATTGGCACCTTCATCTTTAA
131 GCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
331249 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
196 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* * *
331293 TTTAAGACCAATGTCGTTGGCCTTGAATCAGCATATTGGTACCTTTGTCTTTAAAACCAATGTCA
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTGTCTTTAAGACCAATGTCG
* * *
331358 CTAGCCTTGAATCAGCACATTGGCACCGTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTG
66 CTGGCCTTGAATTAGCACATTGGCACCGTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
*
331423 GCACCTTTGTCTTTATGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
131 GCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
*
331488 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTGTC
196 GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
* ** * *
331532 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGTACCTTCATCTTTAAGTCCAATATCG
1 TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTGTCTTTAAGACCAATGTCG
* * *
331597 CTGGCCTTGAATTAGCATATTGGCGCCTTTGTCATCTTTTAAGTCCAATGTCGCTGGCCTTGAAT
66 CTGGCCTTGAATTAGCACATTGGCACC---G-------TTAAGTCCAATATCGCTGGCCTTGAAT
** * * * * *
331662 CAGCACATTGGCACCTTCATCTTTAAGTCCAATATCGTTGGCCTTGAATCAGTATATTGGCACCT
121 CAGCACATTGGCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCT
331727 TC
186 TC
331729 GTCATCTTTA
Statistics
Matches: 390, Mismatches: 36, Indels: 10
0.89 0.08 0.02
Matches are distributed among these distances:
239 305 0.78
242 1 0.00
249 84 0.22
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.33
Consensus pattern (239 bp):
TTTAAGACCAATGTCGCTGGCCTTGAATCAGCATATTGGTACCTTTGTCTTTAAGACCAATGTCG
CTGGCCTTGAATTAGCACATTGGCACCGTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTG
GCACCTTTGTCTTTAAGACCAATGTCGCTGGCCTTGAATCAGCACATTGGCACCTTCATCTTTAA
GTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTATC
Found at i:332514 original size:13 final size:13
Alignment explanation
Indices: 332496--332551 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 13
332486 TCAACAATTC
332496 GTATCGATACAAT
1 GTATCGATACAAT
332509 GTATCGATACATAAGT
1 GTATCGATAC--AA-T
332525 GTTATATCGATACAAT
1 G---TATCGATACAAT
332541 GTATCGATACA
1 GTATCGATACA
332552 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 20 0.54
15 2 0.05
16 4 0.11
17 2 0.05
19 9 0.24
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.32
Consensus pattern (13 bp):
GTATCGATACAAT
Found at i:332534 original size:19 final size:18
Alignment explanation
Indices: 332510--332570 Score: 60
Period size: 19 Copynumber: 3.6 Consensus size: 18
332500 CGATACAATG
332510 TATCGATACATAAGTGTT
1 TATCGATACATAAGTGTT
332528 ATATCGATAC--AA-TG--
1 -TATCGATACATAAGTGTT
*
332542 TATCGATACATAAGTTTT
1 TATCGATACATAAGTGTT
332560 GTATCGATACA
1 -TATCGATACA
332571 ATGTATCGTT
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
13 9 0.26
15 2 0.06
16 3 0.09
17 2 0.06
19 19 0.54
ACGTcount: A:0.36, C:0.13, G:0.15, T:0.36
Consensus pattern (18 bp):
TATCGATACATAAGTGTT
Found at i:332538 original size:32 final size:32
Alignment explanation
Indices: 332497--332578 Score: 146
Period size: 32 Copynumber: 2.6 Consensus size: 32
332487 CAACAATTCG
332497 TATCGATACAATGTATCGATACATAAGTGTTA
1 TATCGATACAATGTATCGATACATAAGTGTTA
* *
332529 TATCGATACAATGTATCGATACATAAGTTTTG
1 TATCGATACAATGTATCGATACATAAGTGTTA
332561 TATCGATACAATGTATCG
1 TATCGATACAATGTATCG
332579 TTACGAAGCT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 48 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (32 bp):
TATCGATACAATGTATCGATACATAAGTGTTA
Found at i:332640 original size:13 final size:13
Alignment explanation
Indices: 332622--332648 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
332612 CATTACTCAA
332622 TGTATCGATACAT
1 TGTATCGATACAT
332635 TGTATCGATACAT
1 TGTATCGATACAT
332648 T
1 T
332649 TGAACTTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:337279 original size:13 final size:13
Alignment explanation
Indices: 337261--337293 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
337251 ACATTTTACC
337261 ATGTATCGATACA
1 ATGTATCGATACA
337274 ATGTATCGATACA
1 ATGTATCGATACA
*
337287 CTGTATC
1 ATGTATC
337294 AATATTAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.33
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:337377 original size:19 final size:20
Alignment explanation
Indices: 337353--337396 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
337343 ACTGTGTATT
337353 GATACCAAG-AACATATATC
1 GATACCAAGCAACATATATC
* *
337372 GATACCAAGCAATATGTATC
1 GATACCAAGCAACATATATC
337392 GATAC
1 GATAC
337397 ATCTGGGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (20 bp):
GATACCAAGCAACATATATC
Found at i:337393 original size:20 final size:19
Alignment explanation
Indices: 337347--337396 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
337337 CAATTTACTG
*
337347 TGTATTGATACCAAGAACA
1 TGTATCGATACCAAGAACA
* *
337366 TATATCGATACCAAGCAATA
1 TGTATCGATACCAAG-AACA
337386 TGTATCGATAC
1 TGTATCGATAC
337397 ATCTGGGTGT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (19 bp):
TGTATCGATACCAAGAACA
Found at i:339344 original size:20 final size:19
Alignment explanation
Indices: 339298--339354 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
339288 TTGTGTCGAT
*
339298 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
* *
339317 TCATTGTATCGAAACATGG
1 ACATTGTATCGATACATGG
339336 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
339355 AAACTGGCAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:345738 original size:21 final size:22
Alignment explanation
Indices: 345714--345763 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
345704 ATCAAATCTT
* *
345714 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
345735 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
345757 --TCAAAAT
1 CTTCAAAAT
345764 CATCAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:348103 original size:13 final size:13
Alignment explanation
Indices: 348085--348111 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
348075 ACATTATGCT
348085 TTGTATCGATACA
1 TTGTATCGATACA
348098 TTGTATCGATACA
1 TTGTATCGATACA
348111 T
1 T
348112 GGACAATTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:348141 original size:19 final size:20
Alignment explanation
Indices: 348097--348173 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
348087 GTATCGATAC
* *
348097 ATTGTATCGATACATGGACA
1 ATTGTATCAATACATGAACA
**
348117 ATTGTATCAATACATGTTC-
1 ATTGTATCAATACATGAACA
* *
348136 ATTGTATCGATGCATGAACA
1 ATTGTATCAATACATGAACA
*
348156 ATTGTATCAATATATGAA
1 ATTGTATCAATACATGAA
348174 ACTGGCAGTA
Statistics
Matches: 46, Mismatches: 10, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
19 15 0.33
20 31 0.67
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (20 bp):
ATTGTATCAATACATGAACA
Found at i:348225 original size:20 final size:19
Alignment explanation
Indices: 348200--348253 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 19
348190 CTACCACTGT
348200 TTGTATCGATACATG-GCACA
1 TTGTATCGATACATGAG-A-A
348220 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGA-GAA
348240 TTGTATCGATACAT
1 TTGTATCGATACAT
348254 TGCTTCTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 30 0.94
21 1 0.03
22 1 0.03
ACGTcount: A:0.31, C:0.15, G:0.19, T:0.35
Consensus pattern (19 bp):
TTGTATCGATACATGAGAA
Found at i:354203 original size:70 final size:70
Alignment explanation
Indices: 354090--354229 Score: 235
Period size: 70 Copynumber: 2.0 Consensus size: 70
354080 CTTTGAGAAT
*
354090 TTCAAAACAAGCAGGCGGTAAAAAGTAAATTGCAGAGAAGTAGACTGAGAAGAGCTTGCGATAGT
1 TTCAAAACAAGCAGGCGGCAAAAAGTAAATTGCAGAGAAGTAGACTGAGAAGAGCTTGCGATAGT
354155 TTCAC
66 TTCAC
* * * *
354160 TTCAAAACAAGCAGGTGGCAAAAGGTAAATTGTAGAGAAGTAGACTGAGAGGAGCTTGCGATAGT
1 TTCAAAACAAGCAGGCGGCAAAAAGTAAATTGCAGAGAAGTAGACTGAGAAGAGCTTGCGATAGT
354225 TTCAC
66 TTCAC
354230 GTATAAGCAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
70 65 1.00
ACGTcount: A:0.39, C:0.14, G:0.27, T:0.21
Consensus pattern (70 bp):
TTCAAAACAAGCAGGCGGCAAAAAGTAAATTGCAGAGAAGTAGACTGAGAAGAGCTTGCGATAGT
TTCAC
Found at i:355340 original size:2 final size:2
Alignment explanation
Indices: 355333--355361 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
355323 AATCCAACCA
355333 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
355362 ATTAAGGCAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:362646 original size:2 final size:2
Alignment explanation
Indices: 362639--362668 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
362629 AGACCCCTTC
362639 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
362669 AAAAACACTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:362947 original size:2 final size:2
Alignment explanation
Indices: 362942--362967 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
362932 TCAAGATTTA
362942 TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG
362968 CGTACATATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:371034 original size:37 final size:37
Alignment explanation
Indices: 370958--371035 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
370948 TTTACATTTT
* *
370958 TTTTATCTTTTGAAAGCTTAGATAAAAACCTCTTTCC
1 TTTTATCTTTTCAAAGCTTAGATAAAAACCTCTTACC
* * *
370995 TTTTATCTTTTCTAAGCTTAGAT-ATAATCTCTCTACC
1 TTTTATCTTTTCAAAGCTTAGATAAAAACCTCT-TACC
371032 TTTT
1 TTTT
371036 TAAGCTATGG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 7 0.20
37 28 0.80
ACGTcount: A:0.26, C:0.19, G:0.06, T:0.49
Consensus pattern (37 bp):
TTTTATCTTTTCAAAGCTTAGATAAAAACCTCTTACC
Found at i:371495 original size:20 final size:21
Alignment explanation
Indices: 371470--371519 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
371460 ATTAAACAGC
* * *
371470 GTATTGATACCAT-GCTTATT
1 GTATTGATACAATGGCTAAAT
371490 GTATTGATACAATGGCTAAAT
1 GTATTGATACAATGGCTAAAT
371511 GTATTGATA
1 GTATTGATA
371520 TAAACAAAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.32, C:0.10, G:0.18, T:0.40
Consensus pattern (21 bp):
GTATTGATACAATGGCTAAAT
Found at i:374839 original size:20 final size:20
Alignment explanation
Indices: 374786--374840 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
374776 AAAATTTCAG
**
374786 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATTGATCA
374806 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATTG-ATCA
374826 ATGTATCGATACATT
1 ATGTATCGATACATT
374841 TCCTTGGCAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 30 0.94
21 2 0.06
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATTGATCA
Found at i:379095 original size:20 final size:21
Alignment explanation
Indices: 379059--379099 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
379049 AGTATAGATG
379059 TTTTTCAAGCATAAAAATAATA
1 TTTTTCAAG-ATAAAAATAATA
379081 TTTTTCAAG-TAAAAATAAT
1 TTTTTCAAGATAAAAATAAT
379100 TCAAAGGATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.53
22 9 0.47
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.39
Consensus pattern (21 bp):
TTTTTCAAGATAAAAATAATA
Found at i:379832 original size:36 final size:35
Alignment explanation
Indices: 379789--379873 Score: 104
Period size: 36 Copynumber: 2.5 Consensus size: 35
379779 CTAAGTGATT
* * *
379789 GAGAGGTTTTATCTTAGCTTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTAT-AAAAAGATAGAGA
379825 GAGAGGTTCTATCTTAGCCTATAAAAAGATAG-G-
1 GAGAGGTTCTATCTTAGCCTATAAAAAGATAGAGA
*
379858 GAG-GTTTCTATCTTAG
1 GAGAGGTTCTATCTTAG
379874 ACTTGAAAGA
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.27
33 3 0.07
34 1 0.02
35 10 0.22
36 19 0.42
ACGTcount: A:0.33, C:0.09, G:0.25, T:0.33
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTATAAAAAGATAGAGA
Found at i:379872 original size:32 final size:35
Alignment explanation
Indices: 379789--379881 Score: 106
Period size: 32 Copynumber: 2.8 Consensus size: 35
379779 CTAAGTGATT
* *
379789 GAGAGGTTT-TATCTTAGCTTTTGAAAAAGATAGA
1 GAGAGGTTTCTATCTTAGCCTATGAAAAAGATAGA
*
379823 GAGAGAGGTTCTATCTTAGCCTAT-AAAAAGATAG-
1 GAGAG-GTTTCTATCTTAGCCTATGAAAAAGATAGA
*
379857 G-GAGGTTTCTATCTTAGACT-TGAAA
1 GAGAGGTTTCTATCTTAGCCTATGAAA
379882 GATAGTGTTG
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
31 1 0.02
32 17 0.33
33 3 0.06
34 6 0.12
35 13 0.25
36 11 0.22
ACGTcount: A:0.34, C:0.10, G:0.24, T:0.32
Consensus pattern (35 bp):
GAGAGGTTTCTATCTTAGCCTATGAAAAAGATAGA
Found at i:381415 original size:21 final size:21
Alignment explanation
Indices: 381391--381430 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
381381 TAATGCTCTT
*
381391 GAAAAGAAAGTAAATGAGTTG
1 GAAAAGAAAATAAATGAGTTG
*
381412 GAAAAGAAAATAAGTGAGT
1 GAAAAGAAAATAAATGAGT
381431 AACAAAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.55, C:0.00, G:0.28, T:0.17
Consensus pattern (21 bp):
GAAAAGAAAATAAATGAGTTG
Found at i:381450 original size:21 final size:21
Alignment explanation
Indices: 381426--381465 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
381416 AGAAAATAAG
381426 TGAG-TAACAAAATAAAAATGA
1 TGAGTTAAC-AAATAAAAATGA
*
381447 TGAGTTAACTAATAAAAAT
1 TGAGTTAACAAATAAAAAT
381466 AAAAATTTGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.57, C:0.05, G:0.12, T:0.25
Consensus pattern (21 bp):
TGAGTTAACAAATAAAAATGA
Found at i:383951 original size:98 final size:99
Alignment explanation
Indices: 383785--383980 Score: 304
Period size: 98 Copynumber: 2.0 Consensus size: 99
383775 AAAAAGGGGA
* * ** *
383785 GAGAGATTATTGTTTATTGGTTTAAGGGTGAGAACGTATTAAGGGGGAGAGTTTGCATAAAATTT
1 GAGAGATTATTGTTTATTGGTTTAAGGGTAAGAACGTATCAAAAGGGAGAGTTTGAATAAAATTT
*
383850 GTATTAAAAAGGAGAGCTTGCATAAACTTTTGGG
66 GTATTAAAAAGGAGAGCTTGCATAAAATTTTGGG
383884 GAGAGATTATTGTTTATTGGTTTAAGGG-AAGAACGTATCAAAAGGGAGAGTTTGAATAAAATTT
1 GAGAGATTATTGTTTATTGGTTTAAGGGTAAGAACGTATCAAAAGGGAGAGTTTGAATAAAATTT
***
383948 GTATTAAGGGGGAGAGCTTGCATAAAATTTTGG
66 GTATTAAAAAGGAGAGCTTGCATAAAATTTTGG
383981 TATTAGTTAC
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
98 60 0.68
99 28 0.32
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.33
Consensus pattern (99 bp):
GAGAGATTATTGTTTATTGGTTTAAGGGTAAGAACGTATCAAAAGGGAGAGTTTGAATAAAATTT
GTATTAAAAAGGAGAGCTTGCATAAAATTTTGGG
Found at i:384674 original size:19 final size:20
Alignment explanation
Indices: 384640--384678 Score: 62
Period size: 19 Copynumber: 1.9 Consensus size: 20
384630 GTATAGATGT
384640 TTTTCAAGCATAAAAATAATG
1 TTTTCAAG-ATAAAAATAATG
384661 TTTTCAAG-TAAAAATAAT
1 TTTTCAAGATAAAAATAAT
384679 TCAAAGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
21 8 0.44
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.36
Consensus pattern (20 bp):
TTTTCAAGATAAAAATAATG
Found at i:384819 original size:19 final size:20
Alignment explanation
Indices: 384771--384820 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
384761 ATACCCAGAT
384771 GTATCGATACATATTGCTTA
1 GTATCGATACATATTGCTTA
** * *
384791 GTATTAATACATGTT-CTTG
1 GTATCGATACATATTGCTTA
384810 GTATCGATACA
1 GTATCGATACA
384821 CCTTGAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.30, C:0.14, G:0.16, T:0.40
Consensus pattern (20 bp):
GTATCGATACATATTGCTTA
Found at i:384893 original size:20 final size:20
Alignment explanation
Indices: 384868--384921 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
384858 AAAACTCACT
384868 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
*
384888 TTGTATCGATACATGGTGAA
1 TTGTATCGATACATGATGAA
384908 TTGTATCGATACAT
1 TTGTATCGATACAT
384922 TGAGCCCAAC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:385434 original size:32 final size:36
Alignment explanation
Indices: 385351--385438 Score: 121
Period size: 36 Copynumber: 2.6 Consensus size: 36
385341 CTACGTGATT
* *
385351 GAGAAGTTCTATCTTAGCCTTTAAAAAAGATAGGGA
1 GAGAGGTTCTATCTTAGCCTGTAAAAAAGATAGGGA
385387 GAGAGGTTCTATCTTAGCCTGT-AAAAAGATA-GG-
1 GAGAGGTTCTATCTTAGCCTGTAAAAAAGATAGGGA
*
385420 GAG-GTTTCTATCTTAGCCT
1 GAGAGGTTCTATCTTAGCCT
385439 TGAAAGATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
32 15 0.31
33 3 0.06
34 2 0.04
35 9 0.18
36 20 0.41
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.31
Consensus pattern (36 bp):
GAGAGGTTCTATCTTAGCCTGTAAAAAAGATAGGGA
Found at i:390099 original size:368 final size:364
Alignment explanation
Indices: 389396--390113 Score: 1066
Period size: 368 Copynumber: 2.0 Consensus size: 364
389386 GTTGACTTCT
* *
389396 AAAAATTTCCTAGGTAAAAAATTTTTGAGTAAATCCCACCAACACAATGGAGAGTTTATTTGATA
1 AAAAACTTCCTAGGTAAAAAATTTTTGAGTAAATCCCACCAACACAATGGAGAGTTTATTCGATA
* *
389461 ATTTTCAATATTAAAGATCTTAGTTAATTTTCATAATAAAAAATTAATTAAATTGGAATAAAAAT
66 ATTTTCAATATCAAAGATCTTAGTTAATTTTCATAAAAAAAAATTAATTAAATTGGAATAAAAAT
* * * * * ** *
389526 TTAAATTTTTTATGCAAAAAAATACACTAAATTAAATCGGACAACAAAGTCATTTTAAGGGAGTA
131 TTAAATTTTTTACGCAAAAAAATACACTAAAATAAATCGAACAACAAAGTCACTTCAAAAGAGCA
* * * *
389591 AATGGATTCTTTTGAATACTCTTGAGGTAAGAAGATATTTCTCTGAATTCCACCAGCATGATGGA
196 AATGGATTCTTTTGAATACTCTTCAGGTAAGAAGATATTTCTCTAAATTCCACCAGCACGATAGA
* *
389656 GAATTCCTTGAAAAATTTTTCAATATATAAATTTCAATTTAAAATAAATAAATTAGATGAGATTT
261 GAATTCCTTCAAAAATTTTTCAATATATAAATTTCAATTTAAAATAAATAAATTAGATGAAATTT
389721 AGATTTTTTTCATAAAATATTAAAATGAATCCTAGGTAA
326 AGATTTTTTTCATAAAATATTAAAATGAATCCTAGGTAA
* * *
389760 AAAAACTTCCTAGGTGAGAAAA-TTTTGATTAAATTCCACCAACACAATGGAGAGTTTATTCGAT
1 AAAAACTTCCTAGGT-AAAAAATTTTTGAGTAAATCCCACCAACACAATGGAGAGTTTATTCGAT
*
389824 AATTTTCAAGTATCAAAGATCTTGGTTAATTTTCATAACCAAAAAAATTAATTAAATTGGAATAA
65 AATTTTCAA-TATCAAAGATCTTAGTTAATTTTCATAA--AAAAAAATTAATTAAATTGGAATAA
** **
389889 AAATTTATAA-TTTTTACGCATAAAAAATGTACTAAAATAAATCGAATGACAAAGTCACTTCAAA
127 AAATTTA-AATTTTTTACGCA-AAAAAATACACTAAAATAAATCGAACAACAAAGTCACTTCAAA
389953 AGAGCAAATGGATTCTTTTGAATACTCTTCAGGTGAA-AAGATATTTCTCTAAATTCCACCAGCA
190 AGAGCAAATGGATTCTTTTGAATACTCTTCAGGT-AAGAAGATATTTCTCTAAATTCCACCAGCA
* **
390017 CGATAGAGAATTCCTTCAAAAATATTTTCAATATTTAAATTTTGATTTAAAATAAATAAATTAGA
254 CGATAGAGAATTCCTTCAAAAAT-TTTTCAATATATAAATTTCAATTTAAAATAAATAAATTAGA
*
390082 TGAAATTTATA-TTTTTTCATAAAATATTAAAA
318 TGAAATTTAGATTTTTTTCATAAAATATTAAAA
390114 CAAATCAGAC
Statistics
Matches: 316, Mismatches: 30, Indels: 12
0.88 0.08 0.03
Matches are distributed among these distances:
364 62 0.20
365 31 0.10
367 40 0.13
368 134 0.42
369 49 0.16
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.35
Consensus pattern (364 bp):
AAAAACTTCCTAGGTAAAAAATTTTTGAGTAAATCCCACCAACACAATGGAGAGTTTATTCGATA
ATTTTCAATATCAAAGATCTTAGTTAATTTTCATAAAAAAAAATTAATTAAATTGGAATAAAAAT
TTAAATTTTTTACGCAAAAAAATACACTAAAATAAATCGAACAACAAAGTCACTTCAAAAGAGCA
AATGGATTCTTTTGAATACTCTTCAGGTAAGAAGATATTTCTCTAAATTCCACCAGCACGATAGA
GAATTCCTTCAAAAATTTTTCAATATATAAATTTCAATTTAAAATAAATAAATTAGATGAAATTT
AGATTTTTTTCATAAAATATTAAAATGAATCCTAGGTAA
Found at i:391197 original size:26 final size:25
Alignment explanation
Indices: 391167--391219 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 25
391157 AAGATGTATA
*
391167 TTTTTATTTTTATGCTTATTATTTTTC
1 TTTTT-TTATTATGCTTA-TATTTTTC
**
391194 TTTTTTTATTATTTTTATATTTTTC
1 TTTTTTTATTATGCTTATATTTTTC
391219 T
1 T
391220 AACCATTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
25 9 0.39
26 9 0.39
27 5 0.22
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (25 bp):
TTTTTTTATTATGCTTATATTTTTC
Found at i:391216 original size:17 final size:17
Alignment explanation
Indices: 391182--391217 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
391172 ATTTTTATGC
* *
391182 TTATTATTTTTCTTTTT
1 TTATTATTTTTATATTT
391199 TTATTATTTTTATATTT
1 TTATTATTTTTATATTT
391216 TT
1 TT
391218 CTAACCATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (17 bp):
TTATTATTTTTATATTT
Found at i:394656 original size:18 final size:18
Alignment explanation
Indices: 394633--394673 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
394623 TGCAACACTT
394633 GAGCTCCCAAAATGATCA
1 GAGCTCCCAAAATGATCA
*
394651 GAGCTCCTAAAATGATCA
1 GAGCTCCCAAAATGATCA
394669 GAGCT
1 GAGCT
394674 TGAATTTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.20
Consensus pattern (18 bp):
GAGCTCCCAAAATGATCA
Found at i:394857 original size:20 final size:20
Alignment explanation
Indices: 394809--394858 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
394799 TGCCTGCATA
* * *
394809 TATCGATAAATTGGAGAATG
1 TATCGATACAGTGAAGAATG
394829 TATCGATACAGTGAAGAATG
1 TATCGATACAGTGAAGAATG
394849 TATCGATACA
1 TATCGATACA
394859 TTTGGGTCAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (20 bp):
TATCGATACAGTGAAGAATG
Found at i:395041 original size:20 final size:20
Alignment explanation
Indices: 395018--395069 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
395008 AATTTCAAAC
*
395018 ATGTATCAATACATTCACTT
1 ATGTATCAATACATTCACTA
* *
395038 ATGTATCGATACGTTCACTA
1 ATGTATCAATACATTCACTA
395058 ATTGTATCAATA
1 A-TGTATCAATA
395070 TAAATCATGG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 18 0.67
21 9 0.33
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGTATCAATACATTCACTA
Found at i:400687 original size:154 final size:156
Alignment explanation
Indices: 400447--400791 Score: 410
Period size: 154 Copynumber: 2.2 Consensus size: 156
400437 AGCACCCTAA
*
400447 GATACTTTCGACGTAGAAGCACCCAATACCCCTAAAGGATTTAAAAACAATAATAAAAAGATGAA
1 GATACTTTCGACGTAGAAGCACCCAATACCCCTAAAAGATTTAAAAACAATAATAAAAAGATGAA
* * * *
400512 CCTATCCTAAAGGCGCACCTTTGGCGTAAAAGCGGGCTCGGTGGTAA-TCTAGGATTTGGCTTT-
66 CCTATCCTAAAGGCGCACCTTTGGCGTAAAAGCAGACTCGATGGTAACT-TAAGATTTGGCTTTA
400575 AGAAAAATTATGAAAATGTCCTTAGGG
130 AGAAAAATTATGAAAATGTCCTTAGGG
* * * * ** * *
400602 GATACTTTCGACGTAGAAGTA-TCAGTATCCCTAAAAGATTTAAAAATGATTATATAAAGATGAA
1 GATACTTTCGACGTAGAAGCACCCAATACCCCTAAAAGATTTAAAAACAATAATAAAAAGATGAA
* * *
400666 CCTATCCTAGAGGCGTACCTTTGGTGTAAAAGCAGACTCGATGGTAACTTAAGATTTGGCTTTAA
66 CCTATCCTAAAGGCGCACCTTTGGCGTAAAAGCAGACTCGATGGTAACTTAAGATTTGGCTTTAA
* * ** * *
400731 G-AAAACTACGAAAATACCCCTAAGG
131 GAAAAATTATGAAAATGTCCTTAGGG
** * * *
400756 GATGTTTTCGACATAGAAGTACCCAATACCCTTAAA
1 GATACTTTCGACGTAGAAGCACCCAATACCCCTAAA
400792 GGACTTGGAA
Statistics
Matches: 158, Mismatches: 29, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
154 125 0.79
155 33 0.21
ACGTcount: A:0.37, C:0.18, G:0.19, T:0.26
Consensus pattern (156 bp):
GATACTTTCGACGTAGAAGCACCCAATACCCCTAAAAGATTTAAAAACAATAATAAAAAGATGAA
CCTATCCTAAAGGCGCACCTTTGGCGTAAAAGCAGACTCGATGGTAACTTAAGATTTGGCTTTAA
GAAAAATTATGAAAATGTCCTTAGGG
Found at i:401406 original size:142 final size:142
Alignment explanation
Indices: 401118--401404 Score: 391
Period size: 142 Copynumber: 2.0 Consensus size: 142
401108 ACCATAGGAT
* * * *
401118 AAAATTAGGACAATAATTTTTATTTAATTTTTAATTTCTAAAAAATTTAATTCGTACCTTAATGG
1 AAAATTAAGACAATAATTTTTATTTAATTTTTAATTTCAAAAAAATTCAATTCATACCTTAATGG
* * * ** * *
401183 AGAACTAAAAAGATACGAAATTTTTTTGAAGATTTCTATATCCCTATGGAAAATCATAGGAATAT
66 AGAACTAAAAAGATACCAAATATTTTTGAAGATTTCTATACCCCTATAAAAAACCATAAGAATAT
*
401248 TAAAAATCTTGA
131 TAAAAATCTTAA
* *
401260 AAAATTAAGACAATAATTTTTATTTAATTTTTAATTTCAAAAAAATTCATTTCATGCCTTAATGG
1 AAAATTAAGACAATAATTTTTATTTAATTTTTAATTTCAAAAAAATTCAATTCATACCTTAATGG
* *
401325 AGATCTGAAAAGATACCAAA-ATTTTTGAAGATTTCTATACCCCTATAAAAAACCATAAGAATA-
66 AGAACTAAAAAGATACCAAATATTTTTGAAGATTTCTATACCCCTATAAAAAACCATAAGAATAT
401388 TAGAAATAT-TTAA
131 TA-AAA-ATCTTAA
401401 AAAA
1 AAAA
401405 ATGACTAAAA
Statistics
Matches: 127, Mismatches: 16, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
140 2 0.02
141 47 0.37
142 78 0.61
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (142 bp):
AAAATTAAGACAATAATTTTTATTTAATTTTTAATTTCAAAAAAATTCAATTCATACCTTAATGG
AGAACTAAAAAGATACCAAATATTTTTGAAGATTTCTATACCCCTATAAAAAACCATAAGAATAT
TAAAAATCTTAA
Found at i:407063 original size:13 final size:13
Alignment explanation
Indices: 407045--407069 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
407035 CATAAAGTGT
407045 TGTATCGATACAA
1 TGTATCGATACAA
407058 TGTATCGATACA
1 TGTATCGATACA
407070 TAAGTTTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:407082 original size:19 final size:19
Alignment explanation
Indices: 407023--407088 Score: 65
Period size: 19 Copynumber: 3.8 Consensus size: 19
407013 ATTTCAACGA
407023 TTTT-TATCGATACATAAAG
1 TTTTGTATCGATACAT-AAG
*
407042 TGTTGTATCGATAC--AA-
1 TTTTGTATCGATACATAAG
407058 ---TGTATCGATACATAAG
1 TTTTGTATCGATACATAAG
407074 TTTTGTATCGATACA
1 TTTTGTATCGATACA
407089 ATGTAAGCTA
Statistics
Matches: 39, Mismatches: 1, Indels: 14
0.72 0.02 0.26
Matches are distributed among these distances:
13 11 0.28
15 2 0.05
17 2 0.05
19 15 0.38
20 9 0.23
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.39
Consensus pattern (19 bp):
TTTTGTATCGATACATAAG
Found at i:407085 original size:32 final size:33
Alignment explanation
Indices: 407027--407093 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 33
407017 CAACGATTTT
407027 TATCGATACATAAAGTGTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
*
407060 TATCGATACAT-AAGTTTTGTATCGATACAATG
1 TATCGATACATAAAGTGTTGTATCGATACAATG
407092 TA
1 TA
407094 AGCTACTGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (33 bp):
TATCGATACATAAAGTGTTGTATCGATACAATG
Found at i:408044 original size:17 final size:15
Alignment explanation
Indices: 408024--408073 Score: 52
Period size: 14 Copynumber: 3.4 Consensus size: 15
408014 TTAGGTAAAA
408024 AAGAAAGAAAGAAGATG
1 AAGAAAGAAAGAA-A-G
408041 AAG-AAGAAAGAAAG
1 AAGAAAGAAAGAAAG
*
408055 AA-AAAGAAA-AAAA
1 AAGAAAGAAAGAAAG
408068 AAGAAA
1 AAGAAA
408074 AAAATATGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.17
14 12 0.40
15 1 0.03
16 9 0.30
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAGAAAG
Found at i:408062 original size:10 final size:10
Alignment explanation
Indices: 408021--408077 Score: 62
Period size: 10 Copynumber: 5.4 Consensus size: 10
408011 AAGTTAGGTA
408021 AAAAAGAAAG
1 AAAAAGAAAG
408031 AAAGAAGATGAAG
1 AAA-AAGA--AAG
408044 AAGAAAGAAAG
1 AA-AAAGAAAG
*
408055 AAAAAGAAAA
1 AAAAAGAAAG
408065 AAAAAGAAA-
1 AAAAAGAAAG
408074 AAAA
1 AAAA
408078 TATGAAATGG
Statistics
Matches: 42, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
9 4 0.10
10 19 0.45
11 9 0.21
13 9 0.21
14 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (10 bp):
AAAAAGAAAG
Found at i:410397 original size:19 final size:19
Alignment explanation
Indices: 410373--410440 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
410363 AATTCAACAA
410373 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
410392 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
410407 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
410424 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
410441 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:410412 original size:13 final size:13
Alignment explanation
Indices: 410394--410418 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
410384 ACATAAGTTT
410394 TGTATCGATACAA
1 TGTATCGATACAA
410407 TGTATCGATACA
1 TGTATCGATACA
410419 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:410416 original size:32 final size:32
Alignment explanation
Indices: 410375--410437 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
410365 TTCAACAATT
*
410375 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
410407 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
410438 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:410498 original size:13 final size:13
Alignment explanation
Indices: 410480--410505 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
410470 CATTTTTCTG
410480 TGTATCGATACAT
1 TGTATCGATACAT
410493 TGTATCGATACAT
1 TGTATCGATACAT
410506 GGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:410502 original size:33 final size:33
Alignment explanation
Indices: 410460--410526 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
410450 GCCAAGGAAA
***
410460 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
410493 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
410526 T
1 T
410527 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:412402 original size:51 final size:53
Alignment explanation
Indices: 412344--412621 Score: 264
Period size: 51 Copynumber: 5.4 Consensus size: 53
412334 AATTCTCCAC
* * *
412344 AATCGGGGATATTCCAACTCCGATTTTATTTTC-AAGACACTAA-TTTTCTAT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCTAAAACACTAATTTTTCTAT
* * * * *
412395 AACCGGGGATACTCCAACCCCGACTTTA-TTTCTAAAATATTGATTTTTC-AT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCTAAAACACTAATTTTTCTAT
* * * * *
412446 AATCGGGGATACTCTAACCCCGGTTTTA-TTGCTAAAACACTAATTTTTCCAC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCTAAAACACTAATTTTTCTAT
* * * *
412498 AATCGTGGATACTCCAACCCCGGTTTTATTTTC-AAAACACCAATTTTTCCTTT
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCTAAAACACTAATTTTT-CTAT
* * * * * * *
412551 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAATTTTC-AC
1 AATCGGGGATACTCCAACCCCGATTTTATTTTCTAAAACACTAATTTTTCTAT
**
412603 AATCGAAGATACTCCAACC
1 AATCGGGGATACTCCAACC
412622 TCGTTATCTC
Statistics
Matches: 186, Mismatches: 35, Indels: 11
0.80 0.15 0.05
Matches are distributed among these distances:
50 4 0.02
51 73 0.39
52 62 0.33
53 34 0.18
54 13 0.07
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (53 bp):
AATCGGGGATACTCCAACCCCGATTTTATTTTCTAAAACACTAATTTTTCTAT
Found at i:412607 original size:105 final size:102
Alignment explanation
Indices: 412344--412621 Score: 272
Period size: 105 Copynumber: 2.7 Consensus size: 102
412334 AATTCTCCAC
* * * * * * *
412344 AATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACA-CTAATTTTCTATAACCGGGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAATTTTC-ACAATCGAGGATACT
* ***
412408 CCAACCCCGACTTTATTTCTAAAATATTGATTTTTCAT
65 CCAACCCCGACTTTATTTCTAAAACACCAATTTTTCAT
* * * * * * * *
412446 AATCGGGGATACTCTAACCCCGGTTTTATTGCTAAAACACTAATTTTTCCACAATCGTGGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAATTTT-CACAATCGAGGATACT
** *
412511 CCAACCCCGGTTTTATTT-TCAAAACACCAATTTTTCCTTT
65 CCAACCCCGACTTTATTTCT-AAAACACCAATTTTT-C-AT
* *
412551 AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAATACCAAATTTTCACAATCGAAGATACT
1 AATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAAATTTTCACAATCGAGGATACT
412616 CCAACC
65 CCAACC
412622 TCGTTATCTC
Statistics
Matches: 139, Mismatches: 31, Indels: 9
0.78 0.17 0.05
Matches are distributed among these distances:
102 32 0.23
103 44 0.32
104 2 0.01
105 49 0.35
106 12 0.09
ACGTcount: A:0.31, C:0.24, G:0.11, T:0.34
Consensus pattern (102 bp):
AATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAAATTTTCACAATCGAGGATACTC
CAACCCCGACTTTATTTCTAAAACACCAATTTTTCAT
Found at i:412641 original size:28 final size:28
Alignment explanation
Indices: 412635--412708 Score: 148
Period size: 28 Copynumber: 2.6 Consensus size: 28
412625 TTATCTCATC
412635 GGGGATACTCCAACCCCGTTACTTCCGA
1 GGGGATACTCCAACCCCGTTACTTCCGA
412663 GGGGATACTCCAACCCCGTTACTTCCGA
1 GGGGATACTCCAACCCCGTTACTTCCGA
412691 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
412709 GCTTTATTCC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 46 1.00
ACGTcount: A:0.22, C:0.36, G:0.23, T:0.19
Consensus pattern (28 bp):
GGGGATACTCCAACCCCGTTACTTCCGA
Found at i:414627 original size:20 final size:20
Alignment explanation
Indices: 414577--414627 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
414567 AAAGTTAGGT
* *
414577 AAAAAAGAAAGAAAGAAGATG
1 AAAAAA-AAAGAAAGAAAAAG
* *
414598 AAGAAGAAAGAAAGAAAAAG
1 AAAAAAAAAGAAAGAAAAAG
414618 AAAAAAAAAG
1 AAAAAAAAAG
414628 GAAAAAAATA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (20 bp):
AAAAAAAAAGAAAGAAAAAG
Found at i:417250 original size:13 final size:13
Alignment explanation
Indices: 417232--417256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
417222 ATTACTCAAA
417232 TGTATCGATACAT
1 TGTATCGATACAT
417245 TGTATCGATACA
1 TGTATCGATACA
417257 CTGATCTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:417393 original size:52 final size:52
Alignment explanation
Indices: 417265--417381 Score: 216
Period size: 52 Copynumber: 2.2 Consensus size: 52
417255 CACTGATCTT
*
417265 TGTATCGATACATGTAGGCAAATTTGCCTAGATGTATCGATACACTATAAAA
1 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
417317 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATGAAA
1 TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
417369 TGTATCGATACAT
1 TGTATCGATACAT
417382 ACAAGCAAAT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 63 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (52 bp):
TGTATCGATACATGTAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:433292 original size:154 final size:149
Alignment explanation
Indices: 433127--433593 Score: 454
Period size: 154 Copynumber: 3.0 Consensus size: 149
433117 TTTCTTTCAG
* *
433127 ATTTTTCCTATTTTCAAAATATAAAGTTTTTGACTCCATAAATTTCTCTAATATCATTTTTCTAA
1 ATTTTTCCTATTTTCAAAATATAAAGTTTTT-ACTCAATAAATTT-TCTAATA-GATTTTT-TAA
* *
433192 GTTTATAATTTTTAAAATTCTTCAAATATTATTGTTTATTTCATATTAAATTAGTTATAAAAATT
62 GTTTATAATTTTTAAAATTCTTCAAATATTTTTGTTTATTTCATATTAAATTAGTTTTAAAAA-T
433257 TTAATTTATTTTATGAGTTTTAGA
126 TTAATTTATTTTATGAGTTTTAGA
* * * *** * **
433281 ATTTTTCCTATTATCAAAATATAGAGTTTTCTCCTTTGTAAATTTTTTGGTAGGATTGTTTTAAG
1 ATTTTTCCTATTTTCAAAATATAAAGTTTT-TACTCAATAAATTTTCTAATA-GATT-TTTTAAG
* * * * *
433346 TTTATAATTTTTAAAATTCTTTAAATATTTTTGTTTAATTT-ATATTAAATCATTTTTGAAAATC
63 TTTATAATTTTTAAAATTCTTCAAATATTTTTGTTT-ATTTCATATTAAATTAGTTTTAAAAATT
* * *
433410 CAATTTATTTTATGAAGTTTAAGG
127 TAATTTATTTTATG-AGTTTTAGA
* * ** * *
433434 ATTTTTCCTGTTTTCAAAATACATGGTTTTTTACTCAATAAAGTTTT-TCAGCTAGATTTTTTTC
1 ATTTTTCCTATTTTCAAAATATAAAG-TTTTTACTCAATAAA-TTTTCT-A-ATAGA-TTTTTTA
* * * * * * *
433498 AGTTTAAAATTTTTAAAATTCATCATATATTTTTATTAAATTCATATTGAATTAGTTTGTTAAAA
61 AGTTTATAATTTTTAAAATTCTTCAAATATTTTTGTTTATTTCATATTAAATTAG-TT-TTAAAA
433563 ATTTAATTTATTTTATGAGTTTT-GA
124 ATTTAATTTATTTTATGAGTTTTAGA
433588 ATTTTT
1 ATTTTT
433594 TTGTATATAT
Statistics
Matches: 253, Mismatches: 48, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
152 14 0.06
153 101 0.40
154 106 0.42
155 12 0.05
156 20 0.08
ACGTcount: A:0.32, C:0.07, G:0.08, T:0.52
Consensus pattern (149 bp):
ATTTTTCCTATTTTCAAAATATAAAGTTTTTACTCAATAAATTTTCTAATAGATTTTTTAAGTTT
ATAATTTTTAAAATTCTTCAAATATTTTTGTTTATTTCATATTAAATTAGTTTTAAAAATTTAAT
TTATTTTATGAGTTTTAGA
Found at i:433372 original size:153 final size:153
Alignment explanation
Indices: 433189--433593 Score: 451
Period size: 153 Copynumber: 2.6 Consensus size: 153
433179 ATCATTTTTC
* *
433189 TAAGTTTATAATTTTTAAAATTCTTCAAATATTATTGTTTATTTCATATTAAATTAGTTATAAAA
1 TAAGTTTATAATTTTTAAAATTCTTCAAATATTTTTGTTTATTTCATATTAAATTAGTTTTAAAA
* * **
433254 ATTTTAATTTATTTTATGAGTTTTAGAATTTTTCCTATTATCAAAATATA-GAGTTTTCTCCTTT
66 A-TTTAATTTATTTTATGAGTTTTAGAATTTTTCCTATTATCAAAATACATG-GTTTTCTACTCA
* * *
433318 GTAAA-TTTTT-TGGTAGGATTGTTT
129 ATAAAGTTTTTCAGCTA-GATTGTTT
* * * *
433342 TAAGTTTATAATTTTTAAAATTCTTTAAATATTTTTGTTTAATTT-ATATTAAATCATTTTTGAA
1 TAAGTTTATAATTTTTAAAATTCTTCAAATATTTTTGTTT-ATTTCATATTAAATTAGTTTTAAA
** * * * * *
433406 AATCCAATTTATTTTATGAAGTTTAAGGATTTTTCCTGTTTTCAAAATACATGGTTTTTTACTCA
65 AATTTAATTTATTTTATG-AGTTTTAGAATTTTTCCTATTATCAAAATACATGGTTTTCTACTCA
*
433471 ATAAAGTTTTTCAGCTAGATTTTTT
129 ATAAAGTTTTTCAGCTAGATTGTTT
* * * * * * * *
433496 TCAGTTTAAAATTTTTAAAATTCATCATATATTTTTATTAAATTCATATTGAATTAGTTTGTTAA
1 TAAGTTTATAATTTTTAAAATTCTTCAAATATTTTTGTTTATTTCATATTAAATTAG-TT-TTAA
433561 AAATTTAATTTATTTTATGAGTTTT-GAATTTTT
64 AAATTTAATTTATTTTATGAGTTTTAGAATTTTT
433594 TTGTATATAT
Statistics
Matches: 207, Mismatches: 37, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
152 14 0.07
153 97 0.47
154 66 0.32
155 10 0.05
156 20 0.10
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (153 bp):
TAAGTTTATAATTTTTAAAATTCTTCAAATATTTTTGTTTATTTCATATTAAATTAGTTTTAAAA
ATTTAATTTATTTTATGAGTTTTAGAATTTTTCCTATTATCAAAATACATGGTTTTCTACTCAAT
AAAGTTTTTCAGCTAGATTGTTT
Found at i:433618 original size:16 final size:15
Alignment explanation
Indices: 433599--433640 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
433589 TTTTTTTGTA
433599 TATATCAATTTTTCTC
1 TATA-CAATTTTTCTC
*
433615 TATAAAGATTTTTCTC
1 TATACA-ATTTTTCTC
433631 -ATACAATTTT
1 TATACAATTTT
433641 ACAAGTTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 5 0.22
15 5 0.22
16 13 0.57
ACGTcount: A:0.31, C:0.14, G:0.02, T:0.52
Consensus pattern (15 bp):
TATACAATTTTTCTC
Found at i:434304 original size:21 final size:21
Alignment explanation
Indices: 434278--434328 Score: 93
Period size: 21 Copynumber: 2.4 Consensus size: 21
434268 GTTGATATGT
*
434278 TTGATTTTTGTTGTGTTTGTC
1 TTGATTTTCGTTGTGTTTGTC
434299 TTGATTTTCGTTGTGTTTGTC
1 TTGATTTTCGTTGTGTTTGTC
434320 TTGATTTTC
1 TTGATTTTC
434329 ATTATAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.06, C:0.08, G:0.22, T:0.65
Consensus pattern (21 bp):
TTGATTTTCGTTGTGTTTGTC
Found at i:435708 original size:157 final size:154
Alignment explanation
Indices: 435499--435819 Score: 394
Period size: 157 Copynumber: 2.1 Consensus size: 154
435489 TTGCCAAATC
* *
435499 TGGGTATTTAGGATAGGTTTATCCTATTCATGATCCTTTTTAAGTTCCTTAAGATTACCAGGATA
1 TGGGTATTTAGGATAGGTTCATCCCATTCATGATCCTTTTTAAGTTCCTTAAGATTACCAGGATA
* * * * * **
435564 CTTTTATGTCTAAGGCAAACCTATAGGGGCATTTTCATAATTTTCTTGGAACCAAGTCCTAGTTT
66 CTTTCATGTCGAAGG-AAACCCATAAGGGCATTTTCATAAGTTT-TTAAAACCAAGTCCTAGTTT
435629 GTCACCGAGATACTTTTATG-CTAAAGG
129 GTCACCGAGATAC-TTTATGCCTAAA-G
* * *
435656 TGGGTATTTAGGATAGGTTCATCCCATTTATGATCCTTTTTAAG-TCCTTTAAGGTTATCAGGAT
1 TGGGTATTTAGGATAGGTTCATCCCATTCATGATCCTTTTTAAGTTCC-TTAAGATTACCAGGAT
* * * ** * *
435720 ACTTTCATGTCGAATGTATCCCATAAGGGCATTTTTGTAAGTTTTTAAAATCGAGTCCTAGTTTG
65 ACTTTCATGTCGAAGGAAACCCATAAGGGCATTTTCATAAGTTTTTAAAACCAAGTCCTAGTTTG
* *
435785 TCACCTAGATGCTTTATGCCTAAAG
130 TCACCGAGATACTTTATGCCTAAAG
435810 TGGGTATTTA
1 TGGGTATTTA
435820 TGATCCTTTT
Statistics
Matches: 141, Mismatches: 21, Indels: 7
0.83 0.12 0.04
Matches are distributed among these distances:
154 17 0.12
155 32 0.23
156 24 0.17
157 68 0.48
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (154 bp):
TGGGTATTTAGGATAGGTTCATCCCATTCATGATCCTTTTTAAGTTCCTTAAGATTACCAGGATA
CTTTCATGTCGAAGGAAACCCATAAGGGCATTTTCATAAGTTTTTAAAACCAAGTCCTAGTTTGT
CACCGAGATACTTTATGCCTAAAG
Found at i:436268 original size:157 final size:155
Alignment explanation
Indices: 435822--436283 Score: 468
Period size: 150 Copynumber: 3.0 Consensus size: 155
435812 GGTATTTATG
* * * * **
435822 ATCCTTTTAAAGTCTTTTAGGGTTATCGGGATACTTTCATGTCAAAGGTATACCTATAGTAGCAT
1 ATCCTTTTTAAGTCCTTTA-GGTTATCGAGATACTTTCATGTC-AAGGTATACTTATAGGGGCAT
* * * * * *
435887 TTTCATAATTTTTCTAGAACCAAGTCCTAGTTTTTCACCTAGATGCTTTTATGCCAAAGGTGGGC
64 TTTTATAATTTTTCTAGAACCAAGTCCTAGGTTATCACCAAGATGCTTTTATGCCAAAGGTGAGT
* * **
435952 ATTTGGGATAGGTTCATCCCATTTATG
129 ATTTAGGATAGGTTCACCCCATTTACA
* * **
435979 ATCCTTTTTAAGTCCTTTAAGGTTACCGAGATACTTTAATGTC-----ATACTTATAGGGGTTTT
1 ATCCTTTTTAAGTCCTTT-AGGTTATCGAGATACTTTCATGTCAAGGTATACTTATAGGGGCATT
* * ** * * *
436039 TTTGTAATTTTTTTA-AACGGAGTCTTTGGTTATCACCAAGATGCTTTTATGCCAATGGTGAGTA
65 TTTATAATTTTTCTAGAACCAAGTCCTAGGTTATCACCAAGATGCTTTTATGCCAAAGGTGAGTA
436103 TTTAGGATAGGTTCACCCCATTTACA
130 TTTAGGATAGGTTCACCCCATTTACA
** * *
436129 ATTGTTTTTAAGTCCTTTAGTGTTATCAAGATATTTTCATGTCGAAGGTATACTTATAGGGGCAT
1 ATCCTTTTTAAGTCCTTTAG-GTTATCGAGATACTTTCATGTC-AAGGTATACTTATAGGGGCAT
* ** * * * * *
436194 TTTTATAATTTTTCTAGAACCTAGTCCTAGGTTGCCATCGAGATGTTTTTATGCCAAAGATGTGT
64 TTTTATAATTTTTCTAGAACCAAGTCCTAGGTTATCACCAAGATGCTTTTATGCCAAAGGTGAGT
* *
436259 ATTTAGGATAGGTTTACCCTATTTA
129 ATTTAGGATAGGTTCACCCCATTTA
436284 TGGTTGTTTT
Statistics
Matches: 245, Mismatches: 51, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
149 2 0.01
150 95 0.39
151 24 0.10
156 28 0.11
157 95 0.39
158 1 0.00
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (155 bp):
ATCCTTTTTAAGTCCTTTAGGTTATCGAGATACTTTCATGTCAAGGTATACTTATAGGGGCATTT
TTATAATTTTTCTAGAACCAAGTCCTAGGTTATCACCAAGATGCTTTTATGCCAAAGGTGAGTAT
TTAGGATAGGTTCACCCCATTTACA
Found at i:436291 original size:157 final size:154
Alignment explanation
Indices: 435815--436324 Score: 467
Period size: 157 Copynumber: 3.3 Consensus size: 154
435805 TAAAGTGGGT
** * * * *
435815 ATTTATGATCCTTTTAAAGTCTTTTAGGGTTATCGGGATACTTTCATGTCAAAGGTATACCTATA
1 ATTTATGATTGTTTTTAAGTCCTTTA-GGTTATCGAGATACTTTCATGTC-AAGGTATACTTATA
** * * * *
435880 GTAGCATTTTCATAATTTTTCTAGAACCAAGTCCTAGTTTTTCACCTAGATGCTTTTATGCCAAA
64 GGGGCATTTTTATAATTTTTCTAGAACCAAGTCCTAGGTTATCACCAAGATGCTTTTATGCCAAA
* * *
435945 GGTGGGCATTTGGGATAGGTTCATCCC
129 GGTGAGTATTTAGGATAGGTTCA-CCC
** * *
435972 ATTTATGATCCTTTTTAAGTCCTTTAAGGTTACCGAGATACTTTAATGTC-----ATACTTATAG
1 ATTTATGATTGTTTTTAAGTCCTTT-AGGTTATCGAGATACTTTCATGTCAAGGTATACTTATAG
** * * ** * * *
436032 GGGTTTTTTTGTAATTTTTTTA-AACGGAGTCTTTGGTTATCACCAAGATGCTTTTATGCCAATG
65 GGGCATTTTTATAATTTTTCTAGAACCAAGTCCTAGGTTATCACCAAGATGCTTTTATGCCAAAG
436096 GTGAGTATTTAGGATAGGTTCACCCC
130 GTGAGTATTTAGGATAGGTTCA-CCC
** * *
436122 ATTTACAATTGTTTTTAAGTCCTTTAGTGTTATCAAGATATTTTCATGTCGAAGGTATACTTATA
1 ATTTATGATTGTTTTTAAGTCCTTTAG-GTTATCGAGATACTTTCATGTC-AAGGTATACTTATA
* ** * * *
436187 GGGGCATTTTTATAATTTTTCTAGAACCTAGTCCTAGGTTGCCATCGAGATGTTTTTATGCCAAA
64 GGGGCATTTTTATAATTTTTCTAGAACCAAGTCCTAGGTTATCACCAAGATGCTTTTATGCCAAA
* * *
436252 GATGTGTATTTAGGATAGGTTTACCC
129 GGTGAGTATTTAGGATAGGTTCACCC
* * * * *
436278 TATTTATGGTTG-TTTTAAGGTCCATTATGATAACCGAGATACTTTCA
1 -ATTTATGATTGTTTTTAA-GTCCTTTA-GGTTATCGAGATACTTTCA
436325 CAGCAAAGGT
Statistics
Matches: 282, Mismatches: 59, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
149 2 0.01
150 95 0.34
151 24 0.09
156 37 0.13
157 122 0.43
158 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.18, T:0.41
Consensus pattern (154 bp):
ATTTATGATTGTTTTTAAGTCCTTTAGGTTATCGAGATACTTTCATGTCAAGGTATACTTATAGG
GGCATTTTTATAATTTTTCTAGAACCAAGTCCTAGGTTATCACCAAGATGCTTTTATGCCAAAGG
TGAGTATTTAGGATAGGTTCACCC
Found at i:439949 original size:7 final size:7
Alignment explanation
Indices: 439947--440006 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
439937 AAAAAAAGGA
439947 AAAAAAG
1 AAAAAAG
*
439954 AAAAATG
1 AAAAAAG
*
439961 -TAAAAG
1 AAAAAAG
439967 AAAAAAG
1 AAAAAAG
439974 AAAAAAG
1 AAAAAAG
439981 AAAAAAG
1 AAAAAAG
** *
439988 CATGAAAT
1 -AAAAAAG
439996 AAAAAAG
1 AAAAAAG
440003 AAAA
1 AAAA
440007 TGCAGATAGT
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
6 4 0.10
7 33 0.80
8 4 0.10
ACGTcount: A:0.78, C:0.02, G:0.13, T:0.07
Consensus pattern (7 bp):
AAAAAAG
Found at i:439985 original size:20 final size:20
Alignment explanation
Indices: 439947--439985 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
439937 AAAAAAAGGA
* *
439947 AAAAAAGAAAAATGTAAAAG
1 AAAAAAGAAAAAAGAAAAAG
439967 AAAAAAGAAAAAAGAAAAA
1 AAAAAAGAAAAAAGAAAAA
439986 AGCATGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.82, C:0.00, G:0.13, T:0.05
Consensus pattern (20 bp):
AAAAAAGAAAAAAGAAAAAG
Found at i:439999 original size:29 final size:27
Alignment explanation
Indices: 439932--440006 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 27
439922 CTCTAAATAA
*
439932 GAAATAAAAAAAGGAAAAAAAGAAAAATGT
1 GAAAT-AAAAAA-G-AAAAAAGAAAAAAGT
* *
439962 AAAAGAAAAAAGAAAAAAGAAAAAAGCAT
1 GAAATAAAAAAGAAAAAAGAAAAAAG--T
439991 GAAATAAAAAAGAAAA
1 GAAATAAAAAAGAAAA
440007 TGCAGATAGT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
27 13 0.34
28 1 0.03
29 21 0.55
30 3 0.08
ACGTcount: A:0.77, C:0.01, G:0.15, T:0.07
Consensus pattern (27 bp):
GAAATAAAAAAGAAAAAAGAAAAAAGT
Found at i:440798 original size:111 final size:111
Alignment explanation
Indices: 440595--440806 Score: 277
Period size: 111 Copynumber: 1.9 Consensus size: 111
440585 AAGGGACTAT
* * * *
440595 CAAATTTGTCTGATTTGAAAGAAATTCATGTTTTATACAACTTGATCTATTCGTGCTTAGGAAAA
1 CAAATTTGTCTGATTTCAAAGAAATTCATATTTTATACAACTTGATCCATTCGTGCCTAGGAAAA
* * *
440660 TGGGGCATGTATCCTATCTATTTTGAAATTTTTGAGCCAATAGCAC
66 TGGGGCATGCATCCTATATATTCTGAAATTTTTGAGCCAATAGCAC
* * * *
440706 CAAATTTGTTTGATTTTCAAA-AAATTCATATTTTATATGATCTT-ATCCATTTGTGCCTAGGAA
1 CAAATTTGTCTGA-TTTCAAAGAAATTCATATTTTATA-CAACTTGATCCATTCGTGCCTAGGAA
440769 AATGGGGCATGCATCCTA-ATAGTTCTGAAATTTTTGAG
64 AATGGGGCATGCATCCTATATA-TTCTGAAATTTTTGAG
440807 TTAACCAAAA
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
110 2 0.02
111 75 0.86
112 10 0.11
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.39
Consensus pattern (111 bp):
CAAATTTGTCTGATTTCAAAGAAATTCATATTTTATACAACTTGATCCATTCGTGCCTAGGAAAA
TGGGGCATGCATCCTATATATTCTGAAATTTTTGAGCCAATAGCAC
Found at i:441431 original size:44 final size:45
Alignment explanation
Indices: 441322--441432 Score: 104
Period size: 44 Copynumber: 2.5 Consensus size: 45
441312 TCATTCCTTG
* * *
441322 CCTTTTTATTGATGTTTGCATTTGCATTATTTCATACTTATTAATA
1 CCTTTTTGTTGATGTTTGTATTTGCATCATTTCATACTTATT-ATA
* * ** *
441368 -C-TTTGGATGACATTGGTATTTGCATCATTTCATA-TGTATT-TA
1 CCTTTTTGTTGATGTTTGTATTTGCATCATTTCATACT-TATTATA
441410 CCTTTTTGTTGATGTTTGTATTT
1 CCTTTTTGTTGATGTTTGTATTT
441433 TCAATGTTTC
Statistics
Matches: 49, Mismatches: 13, Indels: 8
0.70 0.19 0.11
Matches are distributed among these distances:
42 2 0.04
43 2 0.04
44 44 0.90
45 1 0.02
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.54
Consensus pattern (45 bp):
CCTTTTTGTTGATGTTTGTATTTGCATCATTTCATACTTATTATA
Found at i:441557 original size:87 final size:86
Alignment explanation
Indices: 441319--441606 Score: 274
Period size: 87 Copynumber: 3.3 Consensus size: 86
441309 GCATCATTCC
* * * * * *
441319 TTGCCTTTTTATTGATGTTTGCATTTGCATTATTTCAT-ACTTATTAATACTTTGGATGACATTG
1 TTGCCTTTTTATTGATGCTTGCATTTGCATTGTTTCATCAC--ATTTACACTTTGGATAACATTA
* *
441383 GTATTTGCATCATTTCATATGTA
64 GTATTTGCATAATTTCATATGCA
* * * * * * * * * *
441406 TTTACCTTTTTGTTGATGTTTGTATTTTCAATGTTTCACCTACATCTGCACTTTAGATAACATTA
1 -TTGCCTTTTTATTGATGCTTGCATTTGCATTGTTTCATC-ACATTTACACTTTGGATAACATTA
* *
441471 GTATTTGCGTTATTTCATATGCA
64 GTATTTGCATAATTTCATATGCA
* *
441494 TTGCCTTTTTATTAATGCTTGCATTTGCATTGTTTCATGCACATTTACGA-TTTGGATTACATTA
1 TTGCCTTTTTATTGATGCTTGCATTTGCATTGTTTCAT-CACATTTAC-ACTTTGGATAACATTA
*
441558 GTATTTGTATAATTTCATATGCA
64 GTATTTGCATAATTTCATATGCA
** *
441581 TTGCCACTTTATTGATGCTTACATTT
1 TTGCCTTTTTATTGATGCTTGCATTT
441607 ATGTCGCCTC
Statistics
Matches: 160, Mismatches: 36, Indels: 9
0.78 0.18 0.04
Matches are distributed among these distances:
87 90 0.56
88 68 0.43
90 2 0.01
ACGTcount: A:0.23, C:0.15, G:0.13, T:0.49
Consensus pattern (86 bp):
TTGCCTTTTTATTGATGCTTGCATTTGCATTGTTTCATCACATTTACACTTTGGATAACATTAGT
ATTTGCATAATTTCATATGCA
Found at i:442482 original size:51 final size:51
Alignment explanation
Indices: 442388--442484 Score: 133
Period size: 51 Copynumber: 1.9 Consensus size: 51
442378 ACATGTATCG
* * *
442388 ATACATTTTATTTTTTTACCCAGATGTAATGATACATTTTTCAATGCATTC
1 ATACATTCTATTTTGTTACCCAGATGTAATGATACATTATTCAATGCATTC
**
442439 ATACATTCTATTTTGTTACCCAGATGT-ATCGATGTATTATTCAATG
1 ATACATTCTATTTTGTTACCCAGATGTAAT-GATACATTATTCAATG
442485 TATCGACATA
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 2 0.05
51 38 0.95
ACGTcount: A:0.29, C:0.15, G:0.10, T:0.45
Consensus pattern (51 bp):
ATACATTCTATTTTGTTACCCAGATGTAATGATACATTATTCAATGCATTC
Found at i:446416 original size:76 final size:75
Alignment explanation
Indices: 446287--446489 Score: 253
Period size: 76 Copynumber: 2.7 Consensus size: 75
446277 ACTTATTTTT
* * * * * *
446287 AGTTTGTTTTGGTTGTTGGTAAAATTGTAAAAACAACATATTCCCCATTATGTTCTTCTTTTTCA
1 AGTTTGTTTTGGTTGTTGATAAAATTTTAGAAATAACATATTCCCAATCATGTTCTTCTTTTTCA
446352 AGCTGCTATC
66 AGCTGCTATC
* *
446362 AGTTTGTTTTGGTTATTGATAAATATTTTAGAAATAACATATTCCCTATCATGTTCTTCTTTTTC
1 AGTTTGTTTTGGTTGTTGATAAA-ATTTTAGAAATAACATATTCCCAATCATGTTCTTCTTTTTC
* *
446427 AGGCTGTTATC
65 AAGCTGCTATC
* * ** *
446438 AGCTTGTTTCGCCTGTTGATGAAAATTTTAGAAATTACATATTCCCAATCAT
1 AGTTTGTTTTGGTTGTTGAT-AAAATTTTAGAAATAACATATTCCCAATCAT
446490 TTTCCTTTTC
Statistics
Matches: 110, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
75 21 0.19
76 86 0.78
77 3 0.03
ACGTcount: A:0.27, C:0.15, G:0.14, T:0.44
Consensus pattern (75 bp):
AGTTTGTTTTGGTTGTTGATAAAATTTTAGAAATAACATATTCCCAATCATGTTCTTCTTTTTCA
AGCTGCTATC
Done.